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Gene Dmel\att-ORFA

General Information
Symbol	Dmel\att-ORFA	Species	D. melanogaster
Name	alternative testis transcripts open reading frame A	Annotation symbol	CG4241
Feature type	protein_coding_gene	FlyBase ID	FBgn0067783
Created / Updated	2003-12-02/2003-12-02
Genomic Location
Chromosome (arm)	3R	Recombination map
Cytogenetic map	92F1-92F1	Sequence location	3R:16,378,111..16,383,403 [-]
Map ( GBrowse )	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	The gene alternative testis transcripts open reading frame A is referred to in FlyBase by the symbol att-ORFA (CG4241, FBgn0067783). It has the cytological map location 92F1. Its sequence location is 3R:16378111..16383403. Its molecular function is described as: transmembrane transporter activity; binding. It is involved in the biological process transport. 4 alleles are reported. No phenotypic data is available. It has 3 annotated transcripts and 3 annotated polypeptides.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 92F1-92F1   Limits computationally determined from genome sequence between P{PZ}l(3)1058510585 and P{EP}SyndEP409
Experimentally Determined Cytological Location
Cytogenetic map Notes References 92E3-92E4   (Madigan et al., 1996)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology) References Gene Order (overall orientation not stated) References
Gene Model & Products
Please see the GBrowse view of Dmel\att-ORFA for information on other features
Comments on Gene Model
	The att locus (gene cassette) is alternatively expressed at both the RNA and protein levels. The locus encodes RNAs expressed in the soma and a testis specific RNA. It also encodes two proteins, att-ORFA and att-ORFB, that overlap in the DNA sequences that encode them but not in amino acid seuqence, due to use of different reading frames. att-ORFA is translated from both somatic and tesitis-specific RNAs and produces a protein that has homology to the mammalian Graves' disease carrier proteins. att-ORFB is translated only from the testis RNA and produces a completely novel protein.The att-ORFB exons overlap completely with those of the att-ORFA testis-specific transcript but translation initiates at different start codons in different freading frames to produce the two proteins (FBrf0089733).
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) att-ORFA-RA FBtr0089480  NM_142634   1914   365 att-ORFA-RB FBtr0089481  NM_169901   1337   290 att-ORFA-RC FBtr0089482  NM_206522   1669   365
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kD) Length (aa) Theoretical pI RefSeq ID GenBank protein att-ORFA-PA   FBpp0088485   40.4   365   10.44     NP_650891   AAF55774 att-ORFA-PB   FBpp0088486   32.5   290   10.57     NP_732519   AAN14352 att-ORFA-PC   FBpp0088980   40.4   365   10.44     NP_996244   AAS65181
Additional Polypeptide Data & Comments
Reported size (kD)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Mitochondrial substrate carrier (IPR001993) Mitochondrial carrier protein (IPR002067) Graves disease carrier protein (IPR002167)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE003731 AAF55774   AE003731 AAN14352   AE003731 AAS65181   BF487354   BF489787   BF499175   BF499906   BF505136   BF505536   BI213518   BI354566   BI372442   BI580135   BI632181   BT021264 AAX33412   CL868485   CO189661   CO263812   CO275467   CO288906   CO309747   CO341046   CZ479508   CZ480909   EC064175   EC064527   EC072161   EC083347   EC087607   EC196263   EC213553   EC241272   EC244185   EC244220   EC250515
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q8IN53 Q9VDL7
Maps to
Does NOT map to
Identified with	GM27292 RE52377 (BDGP Project Members, 2000-)
Mapped Features & Mutations
Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
FlyBase-Curated Data
Transcript and Protein data	Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
Summary of Transcript Expression
Stage Tissue/Position Reference
Marker for
Subcellular Localization
CV Term
Summary of Polypeptide Expression
Stage Tissue/Position Reference
Marker for
Subcellular Localization
CV Term
External Data & Images
Linkouts	FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0067783
Alleles & Phenotypes
Summary of Allele Phenotypes
Phenotype manifest in Allele
Classical Alleles ( 4 )
For All Classical Alleles Show
Allele of att-ORFA Class Mutagen Stocks Known lesion att-ORFAC861 0 Yes att-ORFAEY11237 P-element activity 1 -- att-ORFAe01697 piggyBac transposase 1 -- att-ORFAe03144 piggyBac transposase 2 Yes
Alleles Carried on Transgenic Constructs ( 0 )
For All Alleles Carried on Transgenic Constructs Show
Allele of att-ORFA Class Mutagen Stocks Known lesion
Aneuploid Aberrations
Useful deficiency	Df(3R)H-B79
Useful duplication	Dp(3;3)M95A+13
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data miscellaneous insertions PBac{RB}att-ORFAe01697 NA PBac{RB}att-ORFAe03144 NA insertion of mobile activating element P{EPgy2}att-ORFAEY11237 NA P{GSV1}CG5180C861 NA
Related Comments
	Please look at the allele reports for the complete phenotype data
Gene Ontology: Function, Process & Cellular Component ( 5 )
Molecular Function
CV term Evidence References
binding inferred from electronic annotation with InterPro:IPR001993, InterPro:IPR002067, InterPro:IPR002167 (FlyBase Curators et al., 2004-)
transmembrane transporter activity inferred from sequence or structural similarity with UniProtKB:P38702 (FlyBase, 1992-) inferred from sequence or structural similarity (Nelson, 2000.4.10)
Biological Process
CV term Evidence References
transport inferred from electronic annotation with InterPro:IPR001993, InterPro:IPR002067, InterPro:IPR002167 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
mitochondrial envelope inferred from sequence or structural similarity with UniProtKB:P38702 (FlyBase, 1992-) inferred from sequence or structural similarity (Nelson, 2000.4.10)
mitochondrial inner membrane inferred from electronic annotation with InterPro:IPR002067, InterPro:IPR002167 (FlyBase Curators et al., 2004-)
Sequence Ontology: Class of Gene
	protein_coding_gene   nuclear_gene   gene_with_recoded_mRNA (Madigan et al., 1996)
Interactions & Pathways
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions att-ORFA allele Gene References
External Data
Linkouts	BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions • 67408
Orthologs
Genome-wide drosophilid orthologs	Dana\GF23201 Dere\GG15401 Dgri\GH14166 Dmoj\GI10537 Dper\GL13935 Dpse\GA18055 Dsec\GM23186 Dsim\GD20059 Dvir\GJ24190 Dwil\GK22721 Dyak\GE25066
Curated drosophilid orthologs	Dpse\GA18055
Linkouts	InParanoid orthologs - Eukaryotic orthologs • ENSANGP00000019850 Anopheles gambiae (Ensembl) ENSBTAP00000002374 Bos taurus (Ensembl) ENSCAFP00000021233 Canis familiaris (Ensembl) ENSCINP00000003321 Ciona intestinalis (Ensembl) NEWSINFRUP00000175102 Takifugu rubripes (Ensembl) ENSGALP00000004118 Gallus gallus (Ensembl) ENSP00000326693 Homo sapiens (Ensembl) ENSMMUP00000025842 Macaca mulatta (Ensembl) ENSMODP00000004974 Monodelphis domestica (Ensembl) ENSPTRP00000018307 Pan troglodytes (Ensembl) ENSRNOP00000027615 Rattus norvegicus (Ensembl) GSTENP00024718001 Tetraodon nigroviridis (Ensembl) ENSXETP00000031354 Xenopus tropicalis (Ensembl) Q8S1A3 Oryza sativa (Gramene) AT4G26180.1 Arabidopsis thaliana (Arabidopsis) WBGene00033444 Caenorhabditis briggsae (Wormbase) WBGene00009666 Caenorhabditis elegans (Wormbase) ZDB-CDNA-040425-1241 Danio rerio (Zfin) ZDB-CDNA-040425-1242 Danio rerio (Zfin) ZDB-GENE-030131-3299 Danio rerio (Zfin) DDB0184176 Dictyostelium discoideum (Dictybase) MGI:1920345 Mus musculus (Informatics) YHR002W Saccharomyces cerevisiae (Yeastgenome) SPAC17H9.08 Schizosaccharomyces pombe (Sanger)
Functional Complementation between Species
Inter-Species Misexpression Data
Produces phenotype in
Produces NO phenotype in
Stocks & Reagents
Stocks Listed in FlyBase ( 4 )
Harvard	- PBac{RB}att-ORFAe01697 - PBac{RB}att-ORFAe03144
Bloomington	18121 w1118; PBac{RB}att-ORFAe03144 att-ORFBe03144/TM6B, Tb1 20669 y1 w67c23; P{EPgy2}att-ORFAEY11237/TM3, Sb1 Ser1
Genomic Clones ( 2 )
	BACR10P06 BACR13J19
cDNA Clones ( 17 )
	Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones	RE52377
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones	SD25808 AT14684 RE18935 AT25941 RE59401 AT07780 RE74275 AT13684 AT07308 AT22127
Other clones	EK117648 EP11761 EK219029 EK136524 EK069638 EK044840
RNAi & Array Information
Affy Oligo
Linkouts	DRSC - RNAi screening (Harvard): high-throughput cell culture data and design • FBgn0067783
Antibody Information
Other Information
Discoverer
Etymology
Identification
Position Effect Variegation Data
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments	The relationship between the "att" locus (encoding att-ORFA and att-ORFB), l(3)92Ea and l(3)92Eb is unclear. (Madigan et al., 1996)
Comments About Role
Comments About Molecular Function
	The "att" locus is alternatively expressed at both the RNA and protein levels. The locus encodes RNAs expressed in the soma and a testis specific RNA. The somatic RNAs encode a protein (att-ORFA) with homology to the mammalian Graves' disease carrier proteins. The testis RNA encodes two different proteins from two reading frames. One of these initiates at a CUG codon and represents an N-terminally truncated version of the protein encoded by the somatic RNAs (att-ORFA). The other protein (att-ORFB) initiates at an AUG codon in testis-specific exon 3 (in a different frame from att-ORFA) and is completely novel. Overall orientation not stated: anon-92Ee+ att-ORFA+ anon-92Ef? (Madigan et al., 1996)
Other Comments
	Annotation CG4241 represents the att-ORFA open reading frame. (FlyBase Genome Annotators, 2004)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_142634 NM_169901 NM_206522 RefSeq (Proteins) • NP_650891 NP_732519 NP_996244 DDBJ / EMBL / GenBank • AE003731 AAF55774 AAS65181 AAN14352 BI354566 BT021264 AAX33412 CL868485 CZ479508 CZ480909 UniProtKB/TrEMBL • Q8IN53 Q9VDL7
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Mitochondrial substrate carrier (IPR001993) Mitochondrial carrier protein (IPR002067) Graves disease carrier protein (IPR002167)
Linkouts
	BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions • 67408 DRSC - RNAi screening (Harvard): high-throughput cell culture data and design • FBgn0067783 FLIGHT - Cell culture data for RNAi and other high-throughput technologies • FBgn0067783 FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0067783 InParanoid orthologs - Eukaryotic orthologs • ENSANGP00000019850 Anopheles gambiae (Ensembl) ENSBTAP00000002374 Bos taurus (Ensembl) ENSCAFP00000021233 Canis familiaris (Ensembl) ENSCINP00000003321 Ciona intestinalis (Ensembl) NEWSINFRUP00000175102 Takifugu rubripes (Ensembl) ENSGALP00000004118 Gallus gallus (Ensembl) ENSP00000326693 Homo sapiens (Ensembl) ENSMMUP00000025842 Macaca mulatta (Ensembl) ENSMODP00000004974 Monodelphis domestica (Ensembl) ENSPTRP00000018307 Pan troglodytes (Ensembl) ENSRNOP00000027615 Rattus norvegicus (Ensembl) GSTENP00024718001 Tetraodon nigroviridis (Ensembl) ENSXETP00000031354 Xenopus tropicalis (Ensembl) Q8S1A3 Oryza sativa (Gramene) AT4G26180.1 Arabidopsis thaliana (Arabidopsis) WBGene00033444 Caenorhabditis briggsae (Wormbase) WBGene00009666 Caenorhabditis elegans (Wormbase) ZDB-CDNA-040425-1241 Danio rerio (Zfin) ZDB-CDNA-040425-1242 Danio rerio (Zfin) ZDB-GENE-030131-3299 Danio rerio (Zfin) DDB0184176 Dictyostelium discoideum (Dictybase) MGI:1920345 Mus musculus (Informatics) YHR002W Saccharomyces cerevisiae (Yeastgenome) SPAC17H9.08 Schizosaccharomyces pombe (Sanger)
Synonyms & Secondary IDs ( 6 )
Reported As
Symbol Synonym	att (Madigan et al., 1996, Molnar et al., 2006) att-ORFA   CG4241 (Egli et al., 2006, Molnar et al., 2006) unnamed (Madigan et al., 1996)
Name Synonym	alternative testis transcripts (Madigan et al., 1996) alternative testis transcripts open reading frame A
Secondary FlyBase IDs
	FBgn0019839 FBgn0038801
References ( 15 )
Research paper	Egli et al., 2006, Molec. Cell. Biol. 26(6): 2286--2296 A family knockout of all four Drosophila metallothioneins reveals a central role in copper homeostasis and detoxification. [FBrf0191190] Molnar et al., 2006, Genetics 174(3): 1635--1659 A gain-of-function screen identifying genes required for vein formation in the Drosophila melanogaster wing. [FBrf0195387] Madigan et al., 1996, Molec. Cell. Biol. 16(8): 4222--4230 att, a target for regulation by tra2 in the testes of Drosophila melanogaster, encodes alternative RNAs and alternative proteins. [FBrf0089733]
Personal communication to FlyBase	Bloomington Drosophila Stock Center, 2004.11.6, Exelixis insertion alleles that are not in FlyBase. Exelixis insertion alleles that are not in FlyBase. [FBrf0179797] FlyBase Curators et al., 2004-, Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. Gene Ontology annotation in FlyBase through association of InterPro records with GO terms. [FBrf0174215] Bailey, 2003.4.11, FlyBase error report for CG4241 on Fri Apr 11 11:51:50 2003. FlyBase error report for CG4241 on Fri Apr 11 11:51:50 2003. [FBrf0157276] Nelson, 2000.4.10, Mitochondrial carrier genes. Mitochondrial carrier genes. [FBrf0126915]
FlyBase analysis	FlyBase Genome Annotators, 2004, Changes affecting gene model number or type in release 3.2 of the annotated D.melanogaster genome. Changes affecting gene model number or type in release 3.2 of the annotated D.melanogaster genome. [FBrf0166453] FlyBase, 1996-, FlyBase inference based on genome sequence analysis. FlyBase inference based on genome sequence analysis. [FBrf0104946] FlyBase, 1992-, FlyBase curation FlyBase curation. [FBrf0105495]
Computer file	Gene Disruption Project members and Exelixis, 2005, Genomic mapping of Exelixis insertion collection. Genomic mapping of Exelixis insertion collection. [FBrf0184340] Gene Disruption Project members, 2001-, [title not yet available] [title not yet available] [FBrf0132177] BDGP Project Members, 2000-, Berkeley Drosophila Genome Project. Berkeley Drosophila Genome Project. [FBrf0125078]
Automatic genome annotation	FamiliarityBreedsContempt, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126705]
Curated genome annotation	Ketchum, 1999.11, [Annotations performed at the Celera Jamboreee.] [Annotations performed at the Celera Jamboreee.] [FBrf0126677]