! PROFORMA CONTROLLED VOCABULARIES Version 13:2: 22 June 2005 ! !VOCABULARY: TYPE OF PUBLICATION ! P1. abstract P1. advertisement P1. autobiography P1. bibliographic list P1. biography P1. book P1. booklet P1. book review P1. computer file ; synonym:CD-ROM P1. conference report P1. demonstration P1. DNA/RNA sequence record P1. protein sequence record P1. erratum ; synonym:correction P1. film ; synonym:video P1. interview P1. jigsaw puzzle P1. letter P1. microscope slides P1. news article P1. note P1. obituary P1. paper P1. patent P1. personal communication to FlyBase P1. poem P1. poster P1. press release P1. recording P1. retraction P1. review P1. slides P1. spoof P1. stock list P1. supplementary material P1. T-shirt P1. tactile diagram P1. teaching note P1. thesis P1. curated genome annotation P1. automatic genome annotation P1. white paper P1. other P1. unpublished ; synonym:privately distributed report ! ! !CURATION-ONLY VOCABULARY: LANGUAGE OF PUBLICATION ! P13. P14. Afrikaans P13. P14. Arabic P13. P14. Armenian P13. P14. Belorussian P13. P14. Bulgarian P13. P14. Catalan P13. P14. Chinese P13. P14. Cumbrian P13. P14. Czech P13. P14. Danish P13. P14. Dutch P13. P14. English P13. P14. Estonian P13. P14. Faroese P13. P14. Farsi P13. P14. Finnish P13. P14. Flemish P13. P14. French P13. P14. German P13. P14. Greek P13. P14. Hebrew P13. P14. Hungarian P13. P14. Icelandic P13. P14. Indonesian P13. P14. Italian P13. P14. Japanese P13. P14. Jugoslavian P13. P14. Korean P13. P14. Latin P13. P14. Latvian P13. P14. Lithuanian P13. P14. Malay P13. P14. Malayalam P13. P14. Norwegian P13. P14. Polish P13. P14. Portuguese P13. P14. Roman Serbo-Croatian P13. P14. Romanian P13. P14. Russian P13. P14. Serbo-Croat P13. P14. Slovak P13. P14. Slovenian P13. P14. Spanish P13. P14. Swedish P13. P14. Turkish P13. P14. Ukrainian P13. P14. Yiddish ! ! !VOCABULARY: GENE CLASS ! G1d. ; abbrev:1 G1d. fusion_gene ; abbrev:2 G1d. transposable_element ; abbrev:4 G1d. foreign_gene ; abbrev:5 G1d. safe_element ; abbrev:6 G1d. foreign_safe_element ; abbrev:7 G1d. mitochondrial_gene ; abbrev:8 G1d. foreign_fusion ; abbrev:10 G1d. sire_element ; abbrev:11 G1d. foreign_sire_element ; abbrev:12 G1d. nuclear_non-protein-coding_RNA_gene ; abbrev:13 G1d. pseudogene ; abbrev:14 G1d. microsatellite ; abbrev:15 G1d. foreign_transposable_element ; abbrev:16 G1d. mitochondrial_protein-coding_gene ; abbrev:17 G1d. mitochondrial_non-protein-coding_gene ; abbrev:18 G1d. mitochondrial_tRNA_gene ; abbrev:19 G1d. mitochondrial_ribosomal_RNA_gene ; abbrev:20 G1d. cytosolic_tRNA_gene ; abbrev:21 G1d. cytosolic_ribosomal_RNA_gene ; abbrev:22 G1d. nuclear_small_nucleolar_RNA_gene ; abbrev:23 G1d. nuclear_snRNA_gene ; abbrev:24 G1d. nuclear_untranslated_RNA_gene ; abbrev:25 G1d. transposable_element_gene ; abbrev:26 G1d. repetitive_element ; abbrev:27 G1d. foreign_transposable_element_gene ; abbrev:28 G1d. foreign_repetitive_element ; abbrev:29 G1d. small_interfering_RNA_encoding_gene G1d. microRNA_encoding_gene G1d. tRNA_pseudogene G1d. uncertain G1d. multicopy_cytosolic_ribosomal_RNA_gene G1d. multicopy_cytosolic_ribosomal_RNA_gene_cassette G1d. multicopy_gene G1d. multicopy_gene_cassette G1d. multicopy_nuclear_untranslated_RNA_gene ! ! !VOCABULARY: POLYMORPHISM ASSAY ! G16c. electrophoretic variant G16c. RFLP G16c. DNA sequence variant ! ! !VOCABULARY: TRANSPOSABLE ELEMENT CLASS ! G21a. non-LTR retrotransposon ; synonym: LINE-like G21a. SINE G21a. LTR retrotransposon G21a. IR ; synonym: TIR G21a. FB G21a. MITE G21a. Helitron ! ! !VOCABULARY: SCOREABILITY RANK ! GA3. RK1 GA3. RK2 GA3. RK3 ! ! !VOCABULARY: MORPHY CLASS ! GA4. amorph GA4. hypomorph GA4. neomorph GA4. antimorph GA4. hypermorph GA4. loss of function GA4. gain of function GA4. wild-type GA4. wild-type generic GA4. isoallele ! ! !VOCABULARY: PHENOTYPIC CLASS QUALIFIER ! GA56.q recessive GA56.q dominant GA56.q codominant GA56.q semidominant GA56.q maternal effect GA56.q rescuable maternal effect GA56.q non-rescuable maternal effect GA56.q paternal effect GA56.q sex limited GA56.q male limited GA56.q female limited GA56.q conditional GA56.q conditional ts GA56.q conditional cs GA56.q conditional RU486 GA56.q conditional tetracycline GA56.q homeotic GA56.q embryonic GA56.q gap GA56.q terminal GA56.q posterior GA56.q pair rule GA56.q segment polarity GA56.q dorsal-ventral polarity GA56.q neurogenic GA56.q larval GA56.q prepupal GA56.q pupal GA56.q pharate adult GA56.q adult GA56.q male GA56.q female GA56.q germ-line clone GA56.q somatic clone GA56.q polyphasic GA56.q cell autonomous GA56.q cell non-autonomous GA56.q fully GA56.q partially GA56.q good GA56.q poor GA56.q reduced GA56.q slow GA56.q fast GA56.q intermediate ! ! !VOCABULARY: PHENOTYPIC CLASS ! GA56. GA28a. wild-type GA56. GA28a. viable GA56. GA28a. semi-viable GA56. GA28a. lethal GA56. GA28a. semi-lethal GA56. GA28a. cell lethal GA56. GA28a. visible GA56. GA28a. eye colour defective GA56. GA28a. body colour defective GA56. GA28a. size defective GA56. GA28a. small body GA56. GA28a. reduced cell number GA56. GA28a. reduced cell size GA56. GA28a. large body GA56. GA28a. increased cell number GA56. GA28a. increased cell size GA56. GA28a. sterile GA56. GA28a. semi-sterile GA56. GA28a. female sterile GA56. GA28a. female semi-sterile GA56. GA28a. female sterile germ-line-dependent GA56. GA28a. female sterile soma-dependent GA56. GA28a. male sterile GA56. GA28a. male semi-sterile GA56. GA28a. male sterile germ-line-dependent GA56. GA28a. male sterile soma-dependent GA56. GA28a. fertile GA56. GA28a. semi-fertile GA56. GA28a. male fertile GA56. GA28a. female fertile GA56. GA28a. grandchildless GA56. GA28a. enhancer of variegation GA56. GA28a. non-enhancer of variegation GA56. GA28a. suppressor of variegation GA56. GA28a. non-suppressor of variegation GA56. GA28a. auxotroph GA56. GA28a. aging defective GA56. GA28a. short lived GA56. GA28a. long lived GA56. GA28a. behavioural GA56. GA28a. geotaxis behaviour defective GA56. GA28a. paralytic GA56. GA28a. hypoactive GA56. GA28a. bang sensitive GA56. GA28a. hyperactive GA56. GA28a. pain response defective GA56. GA28a. circadian rhythm defective GA56. GA28a. locomotor rhythm defective GA56. GA28a. eclosion rhythm defective GA56. GA28a. learning defective GA56. GA28a. memory defective GA56. GA28a. courtship defective GA56. GA28a. mating defective GA56. GA28a. mating rhythm defective GA56. GA28a. song defective GA56. GA28a. chemosensitive behaviour defective GA56. GA28a. olfaction defective GA56. GA28a. gustation defective GA56. GA28a. tarsal response defective GA56. GA28a. auditory system defective GA56. GA28a. environmental stress response defective GA56. GA28a. osmotic stress response defective GA56. GA28a. heat stress response defective GA56. GA28a. visual behaviour defective GA56. GA28a. optomotor behaviour defective GA56. GA28a. phototaxis behaviour defective GA56. GA28a. locomotor behaviour defective GA56. GA28a. jumpless GA56. GA28a. uncoordinated GA56. GA28a. flight behaviour defective GA56. GA28a. flightless GA56. GA28a. feeding behaviour defective GA56. GA28a. grooming behaviour defective GA56. GA28a. touch sensitivity defective GA56. GA28a. photoperiod response variant GA56. GA28a. DNA repair defective GA56. GA28a. cell death defective GA56. GA28a. cell death increase GA56. GA28a. cell death decrease GA56. GA28a. cell growth defective GA56. GA28a. cell size defective GA56. GA28a. cell shape defective GA56. GA28a. cell polarity GA56. GA28a. meiotic GA56. GA28a. mitotic GA56. GA28a. cytokinesis defective GA56. GA28a. neurophysiology defective GA56. GA28a. neuroanatomy defective GA56. GA28a. sex-determination defective GA56. GA28a. dosage compensation defective GA56. GA28a. electrophoretic variant GA56. GA28a. chemical resistant GA56. GA28a. chemical sensitive GA56. GA28a. radiation resistant GA56. GA28a. radiation sensitive GA56. GA28a. Minute GA56. GA28a. hyperplastic GA56. GA28a. tumorigenic GA56. GA28a. melanotic 'tumor' GA56. GA28a. melanotic necrosis GA56. GA28a. immune response defective GA56. GA28a. tissue polarity GA56. GA28a. developmental rate defective GA56. GA28a. wound healing defective ! ! !VOCABULARY: MUTAGEN/ORIGIN ! GA8. A4. unknown GA8. A4. synthetic GA8. A4. in vitro construct GA8. A4. in vitro construct | regulatory fusion GA8. A4. in vitro construct | coding region fusion GA8. A4. in vitro construct | site directed mutagenesis GA8. A4. in vitro construct | deletion GA8. A4. in vitro construct | genomic fragment GA8. A4. in vitro construct | minigene GA8. A4. in vitro construct | amino acid replacement GA8. A4. in vitro construct | RNAi GA8. A4. in vitro construct | other GA8. A4. natural population GA8. A4. cold-treatment GA8. A4. heat-treatment GA8. A4. spontaneous GA8. A4. recombination GA8. A4. gene conversion GA8. A4. intralocus exchange GA8. A4. unequal recombination GA8. A4. mitotic recombination GA8. A4. magnification GA8. A4. detachment GA8. A4. reduction GA8. A4. segregation GA8. A4. FLPase GA8. A4. SCEI endonuclease GA8. A4. Cre recombinase GA8. A4. dysgenesis GA8. A4. IR-hybrid dysgenesis ; synonym:IR GA8. A4. Stalker-hybrid dysgenesis GA8. A4. P-element activity GA8. A4. PM hybrid dysgenesis GA8. A4. &Dgr;2-3 GA8. A4. Js ; synonym:Jumpstarter GA8. A4. p&pgr;25.1 GA8. A4. p&pgr;25.7wc GA8. A4. MR GA8. A4. MRh12 GA8. A4. MRT007 GA8. A4. MRF23.5 GA8. A4. MRF31.1 GA8. A4. hobo activity GA8. A4. hobo dysgenesis GA8. A4. HBL1 ; synonym:Hobbled1 ; synonym:Hobo transposase source GA8. A4. mariner transposase GA8. A4. gypsy element activity GA8. A4. piggyBac transposase GA8. A4. irradiation GA8. A4. &agr; ray GA8. A4. &ggr; ray GA8. A4. 60Co &ggr; ray GA8. A4. 137Cs &ggr; ray GA8. A4. 226Ra &agr; ray ; synonym:radium GA8. A4. 32P GA8. A4. 3H ; synonym:tritium GA8. A4. 3H-deoxycytidine GA8. A4. 3H-thymidine GA8. A4. Bevatron irradiation GA8. A4. deuteron irradiation GA8. A4. magnetic field GA8. A4. neutrons GA8. A4. 252Cf fission neutrons GA8. A4. radio waves GA8. A4. stratosphere exposure GA8. A4. supersonic-treatment GA8. A4. U.V. GA8. A4. X ray GA8. A4. chemical mutagenesis GA8. A4. 1,2-dibromoethane ; synonym:DBE ; CAS:[106-93-4] GA8. A4. 1,2-dichloroethane ; synonym:DCE ; CAS:[107-06-2] GA8. A4. 1,2:5,6-dibenzanthracene ; CAS:[53-70-3] GA8. A4. 1,4-dimethanesulfonoxy-1:4-dimethylbutane ; synonym:CB2348 ; CAS:[2514-83-2] GA8. A4. 1,4-dimethanesulfonoxybut-2-yne ; synonym:CB2058 ; CAS:[2917-96-6] GA8. A4. 1,4-dimethanesulfonoxybutane ; synonym:busulfan ; synonym:CB2041 ; CAS:[55-98-1] GA8. A4. 1,6-dimethylsulfonoxy D-mannitol ; synonym:CB2511 ; CAS:[1187-00-4] GA8. A4. 1,6-dimethylsulfonoxy L-mannitol ; synonym:CB2628 ; CAS:[2514-83-2] GA8. A4. 1-amino-2-naphthol-4-sulfonic acid ; CAS:[116-63-2] GA8. A4. 1-bromo-2-chloroethane ; synonym:BCE ; CAS:[107-04-0] GA8. A4. 1-diethylaminoethylethylamino-4-methyl-thioxanthenone ; CAS:[479-50-5] GA8. A4. 2-chloroethyl methanesulfonate ; synonym:CB1506 ; CAS:[3570-58-9] GA8. A4. 2-fluoroethyl methanesulfonate ; synonym:CB1522 ; CAS:[461-31-4] GA8. A4. 2-methoxyethanol ; CAS:[109-86-4] GA8. A4. 2,5,-bisethylene-imine-1,4-benzoquinone ; CAS:[526-62-5] GA8. A4. 5-bromouracil ; CAS:[51-20-7] GA8. A4. 5-bromouridine ; CAS:[957-75-5] GA8. A4. 7-bromomethyl 12 methyl benz&agr; anthracine ; CAS:[16238-56-5] GA8. A4. actinomycin D ; CAS:[50-76-0] GA8. A4. aminopterin ; CAS:[54-62-6] GA8. A4. benzo(&agr;)pyrene ; CAS:[50-32-8] GA8. A4. caffeine ; CAS:[58-08-2] GA8. A4. cisplatin ; synonym: cis-dichlorodiammineplatinum(II) ; CAS:[15663-27-1] GA8. A4. colchicine ; CAS:[64-86-8] GA8. A4. cupric sulfate ; CAS:[7758-98-7] GA8. A4. diepoxybutane ; synonym:DEB ; synonym:erythritol anhydride ; CAS:[1464-53-5] GA8. A4. diepoxyoctane ; CAS:[2426-07-5] GA8. A4. diethyl sulfate ; synonym:DES ; CAS:[64-67-5] GA8. A4. dimethyl sulfoxide ; CAS:[67-68-5] GA8. A4. DNA ; CAS:[9007-49-2] GA8. A4. ethyl ether ; CAS:[60-29-7] GA8. A4. ethyl methanesulfonate ; synonym:EMS ; synonym:CB1528 ; CAS:[62-50-0] GA8. A4. ethyl nitrosourea ; synonym:ENU ; CAS:[759-73-9] GA8. A4. ethylenimine ; synonym:EI ; CAS:[151-56-4] GA8. A4. ethylene oxide GA8. A4. fagaronine GA8. A4. formaldehyde ; CAS:[50-00-0] GA8. A4. H3BO3 GA8. A4. hesperidine ; CAS:[520-26-3] GA8. A4. hexamethylmelamine ; synonym:altretamine ; synonym:HMM ; CAS:[645-05-6] GA8. A4. hexamethylphosphoramide ; synonym:HMPA ; CAS:[680-31-9] GA8. A4. hycanthon methanesulfonate ; synonym:HMS ; CAS:[23255-93-8] GA8. A4. ICR 100 ; synonym:2-methoxy-6-[3-(ethyl-2-chloroethyl)aminopropylamino]acridine ; synonym:quinacrine mustard ; CAS:[4213-45-0] GA8. A4. ICR 170 ; synonym:2-methoxy-6-dichloro-9-(3-ethyl-2-chloroethyl-aminopropylamino)acridine-dihydrochloride ; CAS:[146-59-8] GA8. A4. iodine ; CAS:[7553-56-2] GA8. A4. Janus green B ; CAS:[2869-83-2] GA8. A4. methoxy diethylnitrosamine GA8. A4. methyl methanesulfonate ; synonym:MMS ; synonym:CB1540 ; CAS:[66-27-3] GA8. A4. mitomycin C ; CAS:[50-07-7] GA8. A4. mustard gas ; synonym:1,1'-thiobis[2-chloroethane ; CAS:[505-60-2] GA8. A4. N-methyl-N'-nitro-N-nitrosoguanidine ; synonym:NNG ; synonym:MNNG ; CAS:[70-25-7] GA8. A4. natural gas GA8. A4. nitrogen mustard ; synonym:2-chloro-N-(2-chloroethyl)-N-methylethanamine ; synonym:HN2 ; synonym:CB1414 ; synonym:mechlorethamine ; CAS:[51-75-2] GA8. A4. nitrosomethyl urea ; synonym:N-methyl-N-nitrosourea ; synonym:MNU ; CAS:[684-93-5] GA8. A4. N-nitrosodimethylamine ; synonym:DMN ; CAS:[62-75-9] GA8. A4. p-N,N-di(2-chloroethyl)aminophenylvaleric acid ; synonym:CB1356 ; CAS:[64508-90-3] GA8. A4. p-N,N-di-(2-chloroethyl)amino-D-phenylalanine ; synonym:CB3026 ; CAS:[13045-94-8] GA8. A4. p-N,N-di-(2-chloroethyl)amino-DL-phenylalanine ; synonym:CB3007 ; synonym:melphalan ; CAS:[148-82-3] GA8. A4. p-N,N-di-(2-chloroethyl)amino-L-phenylalanine ; synonym:CB3025 GA8. A4. p-N,N-di-(2-chloroethyl)aminophenylbutyric acid ; synonym:chlorambucil ; synonym:CB1348 ; CAS:[305-03-3] GA8. A4. p-N,N-di-(2-chloroethyl)aminophenylethylamine ; synonym:CB3034 ; CAS:[58880-18-5] GA8. A4. p-p'-N,N-di(2-chloroethyl)aminophenoxyphenylalanine ; synonym:CB3051 ; CAS:[857-95-4] GA8. A4. quinhydrone ; CAS:[106-34-3] GA8. A4. S-2-chloroethylcysteine ; synonym:CB1592 ; CAS:[28361-96-8] GA8. A4. sodium bisulphite ; CAS:[7631-90-5] GA8. A4. sodium fluoride ; CAS:[7681-49-4] GA8. A4. styryl quinoline ; synonym:CB3086 GA8. A4. sulfur mustard ; synonym:CB1735 ; CAS:[505-60-2] GA8. A4. triaziquone ; CAS:[68-76-8] GA8. A4. triethylenemelamine ; synonym:TEM ; synonym:CB1246 ; CAS:[51-18-3] GA8. A4. urethane ; CAS:[51-79-6] GA8. A4. vinyl carbamate ; CAS:[15805-73-9] ! ! !VOCABULARY: ALLELE ASSAY METHOD ! GA19. In transgenic Drosophila ; abbrev:1 GA19. Whole-organism transient assay ; abbrev:2 GA19. Drosophila cell culture ; abbrev:3 GA19. In transgenic Drosophila (allele of one drosophilid species in genome of another drosophilid) ; abbrev:5 GA19. Whole-organism transient assay (allele from one drosophilid species assayed in another drosophilid) ; abbrev:6 GA19. In transgenic Drosophila (allele of foreign species in genome of drosophilid) ; abbrev:7 GA19. Whole-organism transient assay (allele of foreign species assayed in drosophilid) ; abbrev:8 ! ! Descriptors of wild-type stocks and chromosomes [not implemented in proforma] ! extracted wild-type chromosome ! laboratory stock ! selected wild-type stock ! wild-type stock ! ! !VOCABULARY: TRANSCRIPT CLASS ! GAT4. tRNA GAT4. tRNA-ala GAT4. tRNA-arg GAT4. tRNA-asn GAT4. tRNA-asp GAT4. tRNA-cys GAT4. tRNA-gln GAT4. tRNA-glu GAT4. tRNA-gly GAT4. tRNA-his GAT4. tRNA-ile GAT4. tRNA-leu GAT4. tRNA-lys GAT4. tRNA-met GAT4. tRNA-met-i GAT4. tRNA-phe GAT4. tRNA-pro GAT4. tRNA-Se-cys GAT4. tRNA-ser GAT4. tRNA-thr GAT4. tRNA-trp GAT4. tRNA-tyr GAT4. tRNA-val GAT4. mRNA GAT4. pre-mRNA GAT4. snRNA GAT4. snRNA-U1 GAT4. snRNA-U2 GAT4. snRNA-U3 GAT4. snRNA-U4 GAT4. snRNA-U5 GAT4. snoRNA GAT4. rRNA GAT4. 18S-rRNA GAT4. 28S-rRNA GAT4. 5S-rRNA GAT4. 2S-rRNA GAT4. genomic RNA ; comment:for retroviral genomes GAT4. 17.6 GAT4. 297 GAT4. 412 GAT4. 1731 GAT4. B104 GAT4. blood GAT4. copia GAT4. flea GAT4. gypsy GAT4. HMS-Beagle GAT4. hopper GAT4. mdg1 GAT4. mdg3 GAT4. opus GAT4. springer GAT4. Tom GAT4. 2161 GAT4. D GAT4. Doc GAT4. G GAT4. I GAT4. jockey GAT4. wallaby GAT4. viral transcript ; comment:for other viruses GAT4. DCX GAT4. DCX2 GAT4. RSV GAT4. F GAT4. K GAT4. S GAT4. DCV GAT4. DOV GAT4. DAV GAT4. iota GAT4. sigma GAT4. mitochondrial transcript GAT4. edited RNA ! ! !CURATION-ONLY VOCABULARY: description of nucleic acid sequence data ! K6. intron K6. exon K6. CDS K6. promoter K6. enhancer K6. TATA_signal K6. CAAT_signal K6. 5'UTR K6. 3'UTR K6. polyA_site K6. polyA_signal K6. sig_peptide K6. mutation K6. insertion K6. insertion_site K6. aberr K6. protein_bind K6. prim_transcript K6. misc_feature K6. prot_domain ! ! !VOCABULARY: DNA FEATURE ! K14. ARS sequence K14. AT-rich sequence K14. CAX (opa) repeat K14. GCN repeat K14. GGX (opa-like) repeat K14. G-rich sequence K14. mitochondrial DNA K14. satellite DNA K14. repetitive element K14. repetitive sequence K14. transposable element ! ! !VOCABULARY: ABERRATION CLASS ! A9. Inversion ; abbrev:In A9. Inversion-cum-translocation ; abbrev:InT A9. Bipartite inversion ; abbrev:cIn A9. Translocation ; abbrev:T A9. Cyclic translocation ; abbrev:cT A9. Translocation segregant ; abbrev:Ts A9. Ring ; abbrev:R A9. Compound ; abbrev:C A9. Deficiency ; abbrev:Df A9. Potential deficiency A9. Deficiency (cytologically invisible) ; abbrev:DfCI A9. Deficiency (first two listed breaks) plus inversion ; abbrev:DfIn A9. Deficient translocation ; abbrev:DfT A9. Tandem duplication ; abbrev:tDp A9. Free duplication ; abbrev:fDp A9. Uninverted insertional duplication ; abbrev:eDp A9. Inverted insertional duplication ; abbrev:iDp A9. Unoriented insertional duplication ; abbrev:uDp A9. Bipartite duplication ; abbrev:bDp A9. Uninverted insertional transposition ; abbrev:eTp A9. Inverted insertional transposition ; abbrev:iTp A9. Unoriented insertional transposition ; abbrev:uTp A9. Autosynaptic ; abbrev:AS A9. Laevosynaptic ; abbrev:LS A9. Dextrosynaptic ; abbrev:DS A9. Unchanged ; abbrev:U A9. Free ring duplication ; abbrev:fR ! ! !VOCABULARY: GENETIC INTERACTION QUALIFIER ! GA28a.q GA28b.q suppressor GA28a.q GA28b.q suppressible GA28a.q GA28b.q enhancer GA28a.q GA28b.q enhanceable GA28a.q GA28b.q non-enhancer GA28a.q GA28b.q non-enhanceable GA28a.q GA28b.q non-suppressor GA28a.q GA28b.q non-suppressible ! ! !VOCABULARY: SUBCELLULAR LOCATION QUALIFIER ! GAP6.q GAT23.q GA17.q GA28b.q $subcellular descriptive qualifier GAP6.q GAT23.q GA17.q GA28b.q %apical GAP6.q GAT23.q GA17.q GA28b.q %basal GAP6.q GAT23.q GA17.q GA28b.q %lateral ! ! !VOCABULARY: SUBCELLULAR LOCATION ! GAP6. GAT23. GA17. GA28b. $cell GAP6. GAT23. GA17. GA28b. MA11. insertion | heterochromatin ! !VOCABULARY: TRANSPOSON/CONSTRUCT TYPE OF ENTITY ! M16. natTE M16. natTE | isolate M16. synTE M16. synTE | modified in vivo M16. constr ! !VOCABULARY: TRANSPOSON/CONSTRUCT DESCRIPTION ! M4b. transposon | P M4b. transposon | P | partial M4b. transposon | M4b. transposon | | partial M4b. plasmid M4b. cosmid M4b. episome M4b. BAC M4b. P1 phage ! !VOCABULARY: TRANSPOSON/CONSTRUCT USES ! M14. RNAi (dsRNA) construct | M14. analytical tool | DFS (dominant female sterile) M14. analytical tool | carries FRT site(s) M14. analytical tool | cell ablation M14. analytical tool | cell ablation (binary system) M14. analytical tool | cell marker M14. analytical tool | cell marker (vital) M14. analytical tool | chromosome marker M14. analytical tool | molecular marker M14. analytical tool | mosaic analysis M14. analytical tool | mosaic analysis (binary system) M14. analytical tool | ; comment: eg, 'apoptosis' M14. analytical tool | ; comment: eg, 'BacA\p35' M14. antisense construct | ; comment: AUTOPOP TERM M14. binary system (progenitor) | M14. binary system (regulatory) | ; comment: AUTOPOP TERM M14. binary system (regulatory/progenitor) | M14. binary system (targeted) | ; comment: AUTOPOP TERM M14. binary system (targeted) | | modified gene M14. binary system (targeted) | | fusion construct M14. binary system (targeted) | | epitope tag M14. binary system (targeted/progenitor) | M14. binary system | ligand-inducible M14. binary system | Tn10\tetR ; comment: AUTOPOP TERM M14. carrier transposon ; comment: 'carrier transposon' is the transposon portion of a cloning vector M14. carrier transposon | binary system | @Scer\GAL4@ M14. carrier transposon | binary system | @Tn10\tetR@ M14. carrier transposon | cell ablation M14. carrier transposon | general promoter | M14. carrier transposon | molecular tag | M14. carrier transposon | reporter ; commment: for lacZ; for others use next term(s) M14. carrier transposon | reporter | M14. carrier transposon | reporter | vital M14. carrier transposon | ; comment: 'P' accepted M14. carrier transposon | recombinational | M14. carrier transposon | recombinational | M14. cell culture assay | yeast M14. cell culture assay | M14. cell-specific marker M14. cell-specific marker | M14. characterization | M14. characterization | ; comment: AUTOPOP TERM M14. characterization | | fusion construct ; comment: AUTOPOP TERM M14. characterization | | M14. characterization | | mosaic analysis M14. characterization | | position effects M14. characterization | | protein M14. characterization | | puffing M14. characterization | | regulatory M14. characterization | | zeste-white interactions M14. cloning vector | BAC M14. cloning vector | binary system ; commment: for GAL4; for others use next term M14. cloning vector | binary system | ; commment: eg., @Tn10\tetR@ M14. cloning vector | cell ablation M14. cloning vector | cell culture assay M14. cloning vector | cosmid M14. cloning vector | general promoter | M14. cloning vector | inducible promoter | M14. cloning vector | specific promoter | M14. cloning vector | molecular tag | M14. cloning vector | phage P1 M14. cloning vector | phage P1 | component M14. cloning vector | reporter ; commment: for lacZ; for others use next term(s) M14. cloning vector | reporter | M14. cloning vector | reporter | vital M14. cloning vector | recombination system | @Scer\FRT@ M14. cloning vector | recombination system | @P1\cre@ M14. cloning vector | targeted expression | M14. cloning vector | targeted recombination system M14. cloning vector | transposon | ; comment: 'P' accepted M14. cloning vector | recombinational | M14. cloning vector | recombinational | M14. cloning vector | binary system | ligand-inducible M14. control construct M14. construction intermediate M14. construction progenitor M14. enhancer trap | binary system M14. enhancer trap | ; comment: 'P' accepted M14. enzyme source | M14. FRT construct | ; comment: AUTOPOP TERM M14. FRT construct | | fusion construct M14. gene trap | binary system M14. gene trap | ; comment: 'P' accepted M14. genomic insertion screen M14. GMR construct | ; comment: AUTOPOP TERM M14. heat-shock construct | ; comment: AUTOPOP TERM M14. mobile activating element | GMR M14. mobile activating element | Tn10\tetO M14. mobile activating element | UAS M14. mutagenesis | chromosomal aberrations M14. mutagenesis | local transpositions M14. mutagenesis | product M14. recombinant cloning construct | M14. reporter construct | ; comment: AUTOPOP TERM M14. reporter construct | | binary system M14. reporter construct | vital | ; comment: AUTOPOP TERM M14. reporter construct | binary system | vital M14. reporter construct | M14. reporter construct | | M14. rescue construct | ; comment: AUTOPOP TERM M14. shuttle construct M14. subcellular target | M14. subcellular target | | heat-shock-induced M14. subcellular target | | vital M14. synthetic DNA element M14. synthetic DNA element | protein binding sites(s) M14. synthetic DNA element | M14. targeted recombination donor | M14. transposase source | M14. transposase source | | source immobile M14. transposase source | | source mobile M14. transposase source | | active in germ-line M14. transposase source | | active in germ-line and soma M14. transient assay | | M14. transient assay | | M14. type | FB ; comment: used for natural transposon only M14. type | IR ; comment: used for natural transposon only M14. type | non-LTR retrotransposon ; comment: used for natural transposon only M14. type | LTR retrotransposon ; comment: used for natural transposon only M14. type | undetermined ; comment: used for natural transposon only M14. ubiquitous expression | ; comment: AUTOPOP TERM M14. vector | chromosome marker M14. vector | enhancer trap | binary system M14. vector | enhancer trap | M14. vector | gene trap | binary system M14. vector | gene trap | ! ! !VOCABULARY: CONSTRUCT SEGMENT FEATURE ! MS4a. BAC MS4a. bacterial plasmid segment MS4a. bacterial segment MS4a. bacterial transposon segment MS4a. bacteriophage segment MS4a. cDNA segment MS4a. chimeric segment | :::: MS4a. composite genomic segment MS4a. composite segment MS4a. composite transposon segment MS4a. composite vector segment MS4a. composite viral segment MS4a. cosmid MS4a. cosmid segment MS4a. genomic segment MS4a. linear cosmid MS4a. linear plasmid MS4a. P1 phage MS4a. PAC MS4a. plasmid MS4a. synthetic segment MS4a. transposon segment MS4a. transposon | P MS4a. vector segment MS4a. viral segment MS4a. YAC MS4a. yeast plasmid segment MS4a. yeast segment ! ! !CURATION-ONLY VOCABULARY: Molecular segment Characteristics ! MS4c.q (-) | ; comment: (-) means feature is on complementary strand ! MS4c. 3' UTR | MS4c. 3' flanking | MS4c. 3' terminus | ; comment: (i.e. 'P-element') MS4c. 5' UTR | MS4c. 5' flanking | MS4c. 5' terminus | MS4c. amplifier | MS4c. coding | MS4c. complete | MS4c. incomplete | MS4c. intron | MS4c. enhancer | MS4c. enhancer | | MS4c. epitope tag | MS4c. LTR | MS4c. misc | MS4c. misc | MS4c. misc | MS4c. nuclear localization signal | MS4c. polyA site | MS4c. promoter | MS4c. reporter cassette (+ATG) | MS4c. reporter cassette (-ATG) | MS4c. reporter cassette (minimal promoter) | MS4c. signal peptide | MS4c. transcript | MS4c. transcription start | MS4c. transcription unit | MS4c. translation start | MS4c. translation stop | MS4c. transmembrane domain | ! ! !MS4d. Molecular segment: Other attributes [CV] ! !Same as MS4c, with non-Dm genes (use ), plus: ! MS4d. ori MS4d. M13 replication origin MS4d. f1 origin ! ! !MS4g. Molecular segment: Report features [CV] ! MS4g. allows selection with G418 MS4g. autonomous MS4g. bacterial selection | ampR MS4g. bacterial selection | kanR MS4g. binary component | GAL4 | MS4g. binary component | UAS | MS4g. binary component (progenitor) | UAS | MS4g. cell marker | MS4g. chimeric gene | :::: ; comment: (or gene[allele]) MS4g. chimeric protein | :: ; comment: (or gene[allele]) MS4g. complete rescue | MS4g. enhancer trap | MS4g. full length MS4g. general promoter | MS4g. general promoter | MS4g. high-copy-number plasmid MS4g. inducible promoter | MS4g. inducible promoter | MS4g. ligand-inducible | MS4g. lambda cos sites (3) MS4g. moderate-copy-number plasmid MS4g. modified gene | MS4g. non-autonomous MS4g. partial rescue | MS4g. partial rescue | mini-gene | MS4g. plasmid rescue MS4g. reporter gene | MS4g. selectable marker | MS4g. selection for inserts | lacZ[-] MS4g. transcription unit | MS4g. transcript | MS4g. visible marker | ! !MISCELLANEOUS TERMS THAT MAY BE USED IN FREE TEXT FIELDS ! !NUCLEOTIDE CODES [Cornish-Bowden, 1985, Nucleic Acids Res. 13(9): 3021--3030] ! ! a adenine ! c cytosine ! g guanine ! t thymidine ! u uracil ! m a or c ! r a or g ; synonym:purine ! w a or t ! s c or g ! y c or t ; synonym:pyrimidine ! k g or t ! v a or c or g; not t ! h a or c or t; not g ! d a or g or t; not c ! b c or g or t; not a ! n a or c or g or t ! !MODIFIED BASES [Sprinzl and Gauss, 1982, Nucleic Acids Res. 10(2): r1--r55] ! ! ac4c 4-acetylcytidine ! chm5u 5-(carboxyhydroxymethyl)uridine ! cm 2'-O-methylcytidine ! cmnm5s2u 5-carboxymethylaminoethyl-2-thiouridine ! cmnm5u 5-carboxymethylaminoethyluridine ! d dihydrouridine ! fm 2'-O-methylpseudouridine ! gal q &bgr;,D-galactosylqueosone ! gm 2'-O-methylguanosine ! i inosine ! i6a N6-isopentyladenosine ! m1a 1-methyladenosine ! m1f 1-methylpseudouridine ! m1g 1-methylguanosine ! m1i 1-methylinosine ! m22g 2,2-dimethylguanosine ! m2a 2-methyladenosine ! m2g 2-methylguanosine ! m3c 3-methylcytidine ! m5c 5-methylcytidine ! m6a N6-methyladenosine ! m7g 7-methylguanosine ! mam5u 5-methylaminomethyluridine ! mam5s2u 5-methoxyaminomethyl-2-thiouridine ! man q &bgr;-D-mannosylqueosine ! mcm5s2u 5-methoxycarbonylmethyl-2-thiouridine ! mcm5u 5-methoxycarbonylmethyluridine ! mo5u 5-methoxyuridine ! ms2i6a 2-methylthio-N6-isopentyladenosine ! ms2t6a N-((9-&bgr;-D-ribofuranosyl-2-methylthiopurine-6-yl)carbamoyl)threonine ! mt6a N-((9-&bgr;-D-ribofuranosylpurine-6-yl)N-methyl-carbamoyl)threonine ! mv uridine-5-oxyacetic acid-methylester ! o5u uridine-5-oxyacetic acid ; synonym:v ! osyw wybutoxosine ! p pseudouridine ! q queosine ! s2c 2-thiocytidine ! s2t 5-methyl-2-thiouridine ! s4u 4-thiouridine ! t 5-methyluridine ! t6a N((9-&bgr;-D-ribofuranosylpurine-6-yl)carbamoyl)threonine ! tm 2'-O-methyl-5-methyluridine ! um 2'-O-methyl-uridine ! yw wybutosine ! x 3-(3-amino-3-carboxypropyl)uridine ; synonym:acp3u ! !AMINO ACID ABBREVIATIONS [IUPAC-IUB, 1968, J. Biol. Chem. 243(13): 3557--3559] ! ! Ala Alanine ; synonym:A ! Arg Arginine ; synonym:R ! Asn Asparagine ; synonym:N ! Asp Aspartic acid ; synonym:D ! Cys Cysteine ; synonym:C ! Gln Glutamine ; synonym:Q ! Glu Glutamic acid ; synonym:E ! Gly Glycine ; synonym:G ! His Histidine ; synonym:H ! Ile Isoleucine ; synonym:I ! Leu Leucine ; synonym:L ! Lys Lysine ; synonym:K ! Met Methionine ; synonym:M ! Phe Phenylalanine ; synonym:F ! Pro Proline ; synonym:P ! Ser Serine ; synonym:S ! Thr Threonine ; synonym:T ! Trp Tryptophan ; synonym:W ! Tyr Tyrosine ; synonym:Y ! Val Valine ; synonym:V ! ! Aad 2-Aminoapipic acid ! bAad 3-Aminoapidic acid ! &bgr;Ala &bgr;-Alanine ; synonym:&bgr;-Aminopropionic acid ! Abu 2-Aminobutyric acid ! 4Abu 4-Aminobutyric acid ; synonym:Piperidinic acid ! Acp 6-Aminocaproic acid ! Ahe 2-Aminoheptanoic acid ! Aib 2-Aminoisobutyric acid ! bAib 3-Aminoisobutyric acid ! Apm 2-Aminopimelic acid ! Dbu 2,4-Diaminobutyric acid ! Des Desmosine ! Dpm 2,2'-Diaminopimelic acid ! Dpr 2,3-Diaminopropionic acid ! EtGly N-Ethylglycine ! EtAsn N-Ethylasparagine ! Hyl Hydroxylysine ! aHyl allo-Hydroxylysine ! 3Hyp 3-Hydroxyproline ! 4Hyp 4-Hydroxyproline ! Ide Isodesmosine ! aIle allo-Isoleucine ! MeGly N-Methylglycine ; synonym:Sarcosine ! MeIle N-Methylisoleucine ! MeLys 6-N-Methyllysine ! MeVal N-Methylvaline ! Nva Norvaline ! Nle Norleucine ! Orn Ornithine