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Gene Dvir\trx

General Information
Symbol	Dvir\trx	Species	D. virilis
Name		Annotation symbol	GJ22599
Feature type	protein_coding_gene	FlyBase ID	FBgn0014844
Gene Model Status	Current	Stock availability	None publicly available
Genomic Location
Chromosome (arm)	scaffold_13047	Recombination map
Cytogenetic map		Sequence location	scaffold_13047:18,148,699..18,161,443 [-]
Genomic Maps	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	This gene is referred to in FlyBase by the symbol Dvir\trx (GJ22599, FBgn0014844). It is a protein_coding_gene from Drosophila virilis. An electronic pipeline based on InterPro domains suggests that it has the molecular function: sequence-specific DNA binding transcription factor activity; sequence-specific DNA binding; zinc ion binding; histone methyltransferase activity (H3-K4 specific). An electronic pipeline based on InterPro domains suggests that it is involved in the biological process: regulation of transcription, DNA-dependent; histone H3-K4 methylation. No alleles are reported. It has one annotated transcript and one annotated polypeptide. Protein features are: FY-rich, C-terminal; FY-rich, N-terminal; Histone-lysine N-methyltransferase; Methyltransferase, trithorax; Post-SET domain; SET domain; Zinc finger, FYVE/PHD-type; Zinc finger, PHD-finger; Zinc finger, PHD-type; Zinc finger, RING-type; Zinc finger, RING/FYVE/PHD-type; Zinc finger, nuclear hormone receptor-type. Gene sequence location is scaffold_13047:18148699..18161443.
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dvir\trx for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt) Associated CDS (aa) Dvir\trx-RA FBtr0238524  XM_002054753   11469   3822
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Dvir\trx-PA   FBpp0237016   412.1   3822   6.63     XP_002054789   EDW68309
Additional Polypeptide Data & Comments
Reported size (kDa)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • SET domain (IPR001214) Zinc finger, nuclear hormone receptor-type (IPR001628) Zinc finger, RING-type (IPR001841) Zinc finger, PHD-type (IPR001965) Post-SET domain (IPR003616) FY-rich, N-terminal (IPR003888) FY-rich, C-terminal (IPR003889) Zinc finger, FYVE/PHD-type (IPR011011) Methyltransferase, trithorax (IPR016569) Zinc finger, PHD-finger (IPR019787) Zinc finger, RING/FYVE/PHD-type (IPR013083) Histone-lysine N-methyltransferase (IPR015722)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name CH940650 EDW68309   Z50038 CAA90349
UniProtKB/Swiss-Prot	Q24742
UniProtKB/TrEMBL	B4M059
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
Subcellular Localization (GO Cellular Component)
CV term Evidence References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools
Reference	See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.
FlyAtlas Anatomy Microarray
modENCODE Anatomy RNA-Seq
modENCODE Development RNA-Seq
modENCODE Cell Lines RNA-Seq
modENCODE Treatments RNA-Seq
Expression Clusters
External Data & Images
Linkouts
Alleles & Phenotypes
Summary of Allele Phenotypes
Phenotype manifest in Allele
Classical Alleles ( 0 )
For All Classical Alleles Show
Allele of Dvir\trx Class Mutagen Stocks Known lesion
Alleles Carried on Transgenic Constructs ( 0 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Dvir\trx Class Mutagen Stocks Known lesion
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 7 unique terms )
Terms Based on Experimental Evidence ( 0 terms )
Terms Based on Predictions or Assertions ( 7 terms )
Molecular Function
CV term Evidence References
histone methyltransferase activity (H3-K4 specific) inferred from electronic annotation with InterPro:IPR016569 (FlyBase Curators et al., 2004-) sequence-specific DNA binding inferred from electronic annotation with InterPro:IPR001628 (FlyBase Curators et al., 2004-) sequence-specific DNA binding transcription factor activity inferred from electronic annotation with InterPro:IPR001628 (FlyBase Curators et al., 2004-) zinc ion binding inferred from electronic annotation with InterPro:IPR001628, InterPro:IPR001841, InterPro:IPR001965, InterPro:IPR016569 (FlyBase Curators et al., 2004-)
Biological Process
CV term Evidence References
histone H3-K4 methylation inferred from electronic annotation with InterPro:IPR016569 (FlyBase Curators et al., 2004-) regulation of transcription, DNA-dependent inferred from electronic annotation with InterPro:IPR001628, InterPro:IPR016569 (FlyBase Curators et al., 2004-)
Cellular Component
CV term Evidence References
histone methyltransferase complex inferred from electronic annotation with InterPro:IPR016569 (FlyBase Curators et al., 2004-)
Sequence Ontology: Class of Gene
	gene   nuclear_gene (Drosophila 12 Genomes Consortium, 2008) protein_coding_gene (Drosophila 12 Genomes Consortium, 2008)
Interactions & Pathways
Summary of Physical Interactions
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions Dvir\trx allele Gene References
External Data
Linkouts
Orthologs
OrthoDB Orthologs (1) - based on analysis using Dmel annotation version 5.41
OrthoDB Ortholog Groups
	OrthoDB orthology group searches (Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288) Drosophila inclusive ortholog search EOG6ZS9ND Dipteran inclusive ortholog search EOG6CG0H5 Insect inclusive ortholog search EOG6FBGNQ Arthropod inclusive ortholog search EOG6Z34VF Metazoa inclusive ortholog search EOG6X10JZ
Ortholog(s) in Drosophila melanogaster (EOG6ZS9ND)
Organism Common Name Gene AAA Syntenic Ortholog Multiple Dmel Genes in this Orthologous Group Drosophila melanogaster fruit fly  Dmel\trx Y
Human Orthologs (0)
Gene OMIM HGNC
AAA Orthologs (1) based on analysis using Dmel annotation version 4.3
Organism Gene Drosophila melanogaster Dmel\trx
Stocks & Reagents
Stocks Listed in FlyBase ( 0 )
Genomic Clones ( 0 )
cDNA Clones ( 0 )
	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
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones
RNAi & Array Information
Linkouts
Antibody Information
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of
Source for database merge of
Additional comments
Other Comments
	Dvir\trx is cloned and the gene structure and expression pattern are determined. Many aspects of trx structure and expression are conserved between D.melanogaster and D.virilis. In particular a distinct expression pattern in early embryos previously implicated in maintenance of BX-C expression is also found in D.virilis, suggesting that it is an important feature of trx function. (Tillib et al., 1995)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • XM_002054753 RefSeq (Proteins) • XP_002054789 DDBJ / EMBL / GenBank • CAA90349 EDW68309 Z50038 Entrez Gene - A searchable database of RefSeq genes. • 6630169 UniProtKB/Swiss-Prot • Q24742 UniProtKB/TrEMBL • B4M059
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • SET domain (IPR001214) Zinc finger, nuclear hormone receptor-type (IPR001628) Zinc finger, RING-type (IPR001841) Zinc finger, PHD-type (IPR001965) Post-SET domain (IPR003616) FY-rich, N-terminal (IPR003888) FY-rich, C-terminal (IPR003889) Zinc finger, FYVE/PHD-type (IPR011011) Methyltransferase, trithorax (IPR016569) Zinc finger, PHD-finger (IPR019787) Zinc finger, RING/FYVE/PHD-type (IPR013083) Histone-lysine N-methyltransferase (IPR015722)
Linkouts
	FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0014844
Synonyms & Secondary IDs ( 5 )
Reported As
Symbol Synonym	dvir_GLEANR_7984 (Drosophila 12 Genomes Consortium, 2008) Dvir\trx (Drosophila 12 Genomes Consortium, 2008) T13857 Dv (Alvarez-Venegas and Avramova, 2002) trithorax (Mazo, 1995.7.11) trx (Drosophila 12 Genomes Consortium, 2008)
Name Synonym
Secondary FlyBase IDs
References ( 11 )
Research paper	Drosophila 12 Genomes Consortium et al., 2007, Nature 450(7167): 203--218 Evolution of genes and genomes on the Drosophila phylogeny. [FBrf0200326] Bergman and Kreitman, 2001, Genome Res. 11(8): 1335--1345 Analysis of conserved noncoding DNA in Drosophila reveals similar constraints in intergenic and intronic sequences. [FBrf0137256] Laayouni et al., 2000, Genetics 156(4): 1797--1816 Toward a physical map of Drosophila buzzatii. Use of randomly amplified polymorphic DNA polymorphisms and sequence-tagged site landmarks. [FBrf0131339] McVean and Vieira, 1999, J. Mol. Evol. 49(1): 63--75 The evolution of codon preferences in Drosophila: a maximum-likelihood approach to parameter estimation and hypothesis testing. [FBrf0108927] Moriyama and Powell, 1997, J. Mol. Evol. 45(5): 514--523 Codon usage bias and tRNA abundance in Drosophila. [FBrf0098854] Tillib et al., 1995, Mech. Dev. 53(1): 113--122 Conservation of structure and expression of the trithorax gene between Drosophila virilis and Drosophila melanogaster. [FBrf0084446]
Review	Alvarez-Venegas and Avramova, 2002, Gene 285(1-2): 25--37 SET-domain proteins of the Su(var)3-9, E(z) and trithorax families. [FBrf0149567]
Personal communication to FlyBase	Drosophila 12 Genomes Consortium, 2008, personal communication to FlyBase Symbols and class of gene information for the GLEANR consensus sequences of the 11 sequenced non-melanogaster Drosophila species (Drosophila ananassae, erecta, grimshawi, mojavensis, persimilis, pseudoobscura, sechellia, simulans, willistoni, virilis and yakuba). [FBrf0202436] 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]
FlyBase analysis	FlyBase, 2008, Newly sequenced Drosophila genomes: associations of GLEANR gene predictions (Releases 1.0) with previously known genes in FlyBase. Newly sequenced Drosophila genomes: associations of GLEANR gene predictions (Releases 1.0) with previously known genes in FlyBase. [FBrf0202439]
DNA/RNA sequence record	Mazo, 1995.7.11, GenBank/EMBL/DDBJ: Z50038 D.virilis DNA for trithorax protein gene. [FBrf0117817]