Human Gene VGLL2 (uc003pxn.3) Description and Page Index
  Description: Homo sapiens vestigial like 2 (Drosophila) (VGLL2), transcript variant 1, mRNA.
RefSeq Summary (NM_182645): This gene encodes a protein with a transcriptional enhancer factor 1 (TEF-1) interaction domain. The encoded protein may act as a co-factor of TEF-1 regulated gene expression during skeletal muscle development. Alternatively spliced transcript variants encoding multiple isoforms have been observed. [provided by RefSeq, Jul 2012].
Transcript (Including UTRs)
   Position: hg19 chr6:117,586,721-117,594,728 Size: 8,008 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr6:117,586,927-117,593,657 Size: 6,731 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:117,586,721-117,594,728)mRNA (may differ from genome)Protein (317 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: VGLL2_HUMAN
DESCRIPTION: RecName: Full=Transcription cofactor vestigial-like protein 2; Short=Vgl-2; AltName: Full=Protein VITO1;
FUNCTION: May act as a specific coactivator for the mammalian TEFs. May play a role in the development of skeletal muscles.
SUBUNIT: Interacts with TEFs. Binds to TEAD1/TEF1.
SUBCELLULAR LOCATION: Nucleus (By similarity).
TISSUE SPECIFICITY: Skeletal muscle.
SIMILARITY: Belongs to the vestigial family.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 22.94 RPKM in Muscle - Skeletal
Total median expression: 25.12 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -88.80206-0.431 Picture PostScript Text
3' UTR -313.941071-0.293 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR006627 - TDU_repeat
IPR011520 - Vg_Tdu

Pfam Domains:
PF07545 - Vestigial/Tondu family

ModBase Predicted Comparative 3D Structure on Q8N8G2
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details  Gene Details  
Gene Sorter  Gene Sorter  
  EnsemblFlyBase  
  Protein SequenceProtein Sequence  
  AlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003713 transcription coactivator activity
GO:0005515 protein binding
GO:0008022 protein C-terminus binding
GO:0003705 transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0007519 skeletal muscle tissue development
GO:0045944 positive regulation of transcription from RNA polymerase II promoter

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AY056583 - Homo sapiens transcription cofactor vestigial-like 2 protein (VGL2) mRNA, complete cds.
AJ578053 - Homo sapiens mRNA for VITO1 protein.
JD351616 - Sequence 332640 from Patent EP1572962.
BC100798 - Homo sapiens vestigial like 2 (Drosophila), mRNA (cDNA clone IMAGE:40000690), complete cds.
BC100799 - Homo sapiens vestigial like 2 (Drosophila), mRNA (cDNA clone IMAGE:40000691), complete cds.
BC118545 - Homo sapiens vestigial like 2 (Drosophila), mRNA (cDNA clone IMAGE:40000693), complete cds.
BC118622 - Homo sapiens vestigial like 2 (Drosophila), mRNA (cDNA clone IMAGE:40000692), complete cds.
JD181152 - Sequence 162176 from Patent EP1572962.
BC069316 - Homo sapiens vestigial like 2 (Drosophila), mRNA (cDNA clone IMAGE:7262154), complete cds.
AK096878 - Homo sapiens cDNA FLJ39559 fis, clone SKMUS2000701, weakly similar to VESTIGIAL PROTEIN.
JD205161 - Sequence 186185 from Patent EP1572962.
BC156482 - Synthetic construct Homo sapiens clone IMAGE:100063030, MGC:190668 vestigial like 2 (Drosophila) (VGLL2) mRNA, encodes complete protein.
BC172539 - Synthetic construct Homo sapiens clone IMAGE:100069233, MGC:199244 vestigial like 2 (Drosophila) (VGLL2) mRNA, encodes complete protein.
HQ448473 - Synthetic construct Homo sapiens clone IMAGE:100071902; CCSB013823_02 vestigial like 2 (Drosophila) (VGLL2) gene, encodes complete protein.
KJ900493 - Synthetic construct Homo sapiens clone ccsbBroadEn_09887 VGLL2 gene, encodes complete protein.
JD423856 - Sequence 404880 from Patent EP1572962.
JD054107 - Sequence 35131 from Patent EP1572962.
JD044724 - Sequence 25748 from Patent EP1572962.
JD233476 - Sequence 214500 from Patent EP1572962.
JD298855 - Sequence 279879 from Patent EP1572962.
JD038030 - Sequence 19054 from Patent EP1572962.
JD346173 - Sequence 327197 from Patent EP1572962.
JD165175 - Sequence 146199 from Patent EP1572962.
JD099616 - Sequence 80640 from Patent EP1572962.
JD105081 - Sequence 86105 from Patent EP1572962.
JD061126 - Sequence 42150 from Patent EP1572962.
JD498030 - Sequence 479054 from Patent EP1572962.
JD063601 - Sequence 44625 from Patent EP1572962.
JD501079 - Sequence 482103 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_182645, NP_872586, Q8N8G2, Q8WWX1, VGLL2_HUMAN, VITO1
UCSC ID: uc003pxn.3
RefSeq Accession: NM_182645
Protein: Q8N8G2 (aka VGLL2_HUMAN or VGL2_HUMAN)
CCDS: CCDS5115.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_182645.3
exon count: 4CDS single in 3' UTR: no RNA size: 2231
ORF size: 954CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2056.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.