Human Gene VGLL3 (uc003dqn.3)
  Description: Homo sapiens vestigial like 3 (Drosophila) (VGLL3), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr3:86,987,123-87,040,257 Size: 53,135 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr3:86,996,174-87,039,893 Size: 43,720 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:86,987,123-87,040,257)mRNA (may differ from genome)Protein (326 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkHGNCHPRDLynxMalacardsMGI
neXtProtOMIMPubMedTreefamUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: VGLL3_HUMAN
DESCRIPTION: RecName: Full=Transcription cofactor vestigial-like protein 3; Short=Vgl-3;
FUNCTION: May act as a specific coactivator for the mammalian TEFs (By similarity).
SUBCELLULAR LOCATION: Nucleus (By similarity).
TISSUE SPECIFICITY: Enriched in placenta.
SIMILARITY: Belongs to the vestigial family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): VGLL3
CDC HuGE Published Literature: VGLL3
Positive Disease Associations: Metabolism , Osteoporosis , Prostatic Neoplasms
Related Studies:
  1. Metabolism
    , , . [PubMed 0]
  2. Metabolism
    , , . [PubMed 0]
  3. Metabolism
    , , . [PubMed 0]
           more ... click here to view the complete list

-  MalaCards Disease Associations
  MalaCards Gene Search: VGLL3
Diseases sorted by gene-association score: prostate cancer susceptibility (1)

-  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: 48.48 RPKM in Cells - Cultured fibroblasts
Total median expression: 178.97 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 -217.20364-0.597 Picture PostScript Text
3' UTR -2335.559051-0.258 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 A8MV65
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 BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
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:0006357 regulation of transcription from RNA polymerase II promoter

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  CR936700 - Homo sapiens mRNA; cDNA DKFZp686O1845 (from clone DKFZp686O1845).
BC094780 - Homo sapiens vestigial like 3 (Drosophila), mRNA (cDNA clone MGC:104691 IMAGE:30528902), complete cds.
KJ905099 - Synthetic construct Homo sapiens clone ccsbBroadEn_14493 VGLL3 gene, encodes complete protein.
LF343357 - JP 2014500723-A/150860: Polycomb-Associated Non-Coding RNAs.
LF361953 - JP 2014500723-A/169456: Polycomb-Associated Non-Coding RNAs.
MA578934 - JP 2018138019-A/150860: Polycomb-Associated Non-Coding RNAs.
MA597530 - JP 2018138019-A/169456: Polycomb-Associated Non-Coding RNAs.
BC062478 - Homo sapiens vestigial like 3 (Drosophila), mRNA (cDNA clone IMAGE:30396175).
AF099505 - Homo sapiens clone CCR5 colon carcinoma related protein mRNA, complete cds.
AK095826 - Homo sapiens cDNA FLJ38507 fis, clone HCHON2000315.
BC017383 - Homo sapiens cDNA clone IMAGE:4093839.
JD237512 - Sequence 218536 from Patent EP1572962.
JD488131 - Sequence 469155 from Patent EP1572962.
JD513394 - Sequence 494418 from Patent EP1572962.
JD151679 - Sequence 132703 from Patent EP1572962.
CR936712 - Homo sapiens mRNA; cDNA DKFZp781C1121 (from clone DKFZp781C1121).
JD452162 - Sequence 433186 from Patent EP1572962.
JD452163 - Sequence 433187 from Patent EP1572962.
JD450884 - Sequence 431908 from Patent EP1572962.
JD130749 - Sequence 111773 from Patent EP1572962.
JD429641 - Sequence 410665 from Patent EP1572962.
JD330550 - Sequence 311574 from Patent EP1572962.
JD116181 - Sequence 97205 from Patent EP1572962.
JD093317 - Sequence 74341 from Patent EP1572962.
JD181620 - Sequence 162644 from Patent EP1572962.
JD560266 - Sequence 541290 from Patent EP1572962.
JD268572 - Sequence 249596 from Patent EP1572962.
JD244926 - Sequence 225950 from Patent EP1572962.
JD552829 - Sequence 533853 from Patent EP1572962.
JD184629 - Sequence 165653 from Patent EP1572962.
JD428602 - Sequence 409626 from Patent EP1572962.
JD305658 - Sequence 286682 from Patent EP1572962.
JD185219 - Sequence 166243 from Patent EP1572962.
JD359177 - Sequence 340201 from Patent EP1572962.
JD328086 - Sequence 309110 from Patent EP1572962.
JD323757 - Sequence 304781 from Patent EP1572962.
JD187371 - Sequence 168395 from Patent EP1572962.
JD226713 - Sequence 207737 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A8MV65, D3DU37, NM_016206, NP_057290, Q504T7, VGLL3_HUMAN
UCSC ID: uc003dqn.3
RefSeq Accession: NM_016206
Protein: A8MV65 (aka VGLL3_HUMAN)
CCDS: CCDS43110.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_016206.2
exon count: 4CDS single in 3' UTR: no RNA size: 10396
ORF size: 981CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1908.00frame 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.