Human Gene VCL (ENST00000211998.10_10) from GENCODE V47lift37
  Description: vinculin, transcript variant 1 (from RefSeq NM_014000.3)
Gencode Transcript: ENST00000211998.10_10
Gencode Gene: ENSG00000035403.18_11
Transcript (Including UTRs)
   Position: hg19 chr10:75,757,874-75,879,927 Size: 122,054 Total Exon Count: 22 Strand: +
Coding Region
   Position: hg19 chr10:75,757,966-75,877,927 Size: 119,962 Coding Exon Count: 22 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsPathways
Other NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:75,757,874-75,879,927)mRNA (may differ from genome)Protein (1134 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: VCL
Diseases sorted by gene-association score: cardiomyopathy, dilated, 1w* (1229), cardiomyopathy, hypertrophic, 15* (1200), vcl-related dilated cardiomyopathy* (500), vcl-related familial hypertrophic cardiomyopathy* (500), familial isolated dilated cardiomyopathy* (94), dilated cardiomyopathy* (33), shigellosis (19), larynx verrucous carcinoma (16), pelvic varices (15), becker muscular dystrophy (14), cardiomyopathy (14), congestive heart failure (12), darier disease (9), grover's disease (9), butterfly-shaped pigment dystrophy (9), cerebrotendinous xanthomatosis (8), childhood kidney cell carcinoma (8), cardiomyopathy, familial hypertrophic (7), quebec platelet disorder (7), acute cor pulmonale (6), acute pulmonary heart disease (5), epidermolysis bullosa simplex with muscular dystrophy (5), duchenne muscular dystrophy (3)
* = Manually curated disease association

-  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: 156.82 RPKM in Artery - Tibial
Total median expression: 2332.55 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 -22.8092-0.248 Picture PostScript Text
3' UTR -545.502000-0.273 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.

-  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 orthologNo orthologNo orthologGenome BrowserNo ortholog
Gene DetailsGene Details  Gene Details 
Gene SorterGene Sorter  Gene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Descriptions from all associated GenBank mRNAs
  BX537994 - Homo sapiens mRNA; cDNA DKFZp686C1586 (from clone DKFZp686C1586); complete cds.
LF209953 - JP 2014500723-A/17456: Polycomb-Associated Non-Coding RNAs.
AK304823 - Homo sapiens cDNA FLJ59659 complete cds, highly similar to Vinculin.
EU794673 - Homo sapiens epididymis luminal protein 114 (HEL114) mRNA, complete cds.
LF384967 - JP 2014500723-A/192470: Polycomb-Associated Non-Coding RNAs.
AK300280 - Homo sapiens cDNA FLJ53006 complete cds, highly similar to Vinculin.
AK296509 - Homo sapiens cDNA FLJ55698 complete cds, highly similar to Vinculin.
BC099919 - Homo sapiens cDNA clone IMAGE:4549190, **** WARNING: chimeric clone ****.
BC039174 - Homo sapiens vinculin, mRNA (cDNA clone MGC:21734 IMAGE:4520338), complete cds.
GQ900900 - Homo sapiens clone HEL-T-12 epididymis secretory sperm binding protein mRNA, complete cds.
M33308 - Human vinculin mRNA, complete cds.
AB385172 - Synthetic construct DNA, clone: pF1KB7006, Homo sapiens VCL gene for vinculin, complete cds, without stop codon, in Flexi system.
DQ894680 - Synthetic construct Homo sapiens clone IMAGE:100009140; FLH177426.01L; RZPDo839H11123D vinculin (VCL) gene, encodes complete protein.
AK126978 - Homo sapiens cDNA FLJ45031 fis, clone BRAWH3018548, highly similar to Vinculin.
MA620544 - JP 2018138019-A/192470: Polycomb-Associated Non-Coding RNAs.
MA445530 - JP 2018138019-A/17456: Polycomb-Associated Non-Coding RNAs.
LF333168 - JP 2014500723-A/140671: Polycomb-Associated Non-Coding RNAs.
MA568745 - JP 2018138019-A/140671: Polycomb-Associated Non-Coding RNAs.
LF333189 - JP 2014500723-A/140692: Polycomb-Associated Non-Coding RNAs.
LF333190 - JP 2014500723-A/140693: Polycomb-Associated Non-Coding RNAs.
LF333193 - JP 2014500723-A/140696: Polycomb-Associated Non-Coding RNAs.
LF333196 - JP 2014500723-A/140699: Polycomb-Associated Non-Coding RNAs.
LF333197 - JP 2014500723-A/140700: Polycomb-Associated Non-Coding RNAs.
AL832130 - Homo sapiens mRNA; cDNA DKFZp686H1210 (from clone DKFZp686H1210).
LF333200 - JP 2014500723-A/140703: Polycomb-Associated Non-Coding RNAs.
LF333201 - JP 2014500723-A/140704: Polycomb-Associated Non-Coding RNAs.
LF333205 - JP 2014500723-A/140708: Polycomb-Associated Non-Coding RNAs.
LF333206 - JP 2014500723-A/140709: Polycomb-Associated Non-Coding RNAs.
LF333207 - JP 2014500723-A/140710: Polycomb-Associated Non-Coding RNAs.
LF333209 - JP 2014500723-A/140712: Polycomb-Associated Non-Coding RNAs.
LF333211 - JP 2014500723-A/140714: Polycomb-Associated Non-Coding RNAs.
LF333216 - JP 2014500723-A/140719: Polycomb-Associated Non-Coding RNAs.
LF333218 - JP 2014500723-A/140721: Polycomb-Associated Non-Coding RNAs.
BC013847 - Homo sapiens vinculin, mRNA (cDNA clone IMAGE:4387297).
LF333220 - JP 2014500723-A/140723: Polycomb-Associated Non-Coding RNAs.
LF333225 - JP 2014500723-A/140728: Polycomb-Associated Non-Coding RNAs.
JD225094 - Sequence 206118 from Patent EP1572962.
LF333228 - JP 2014500723-A/140731: Polycomb-Associated Non-Coding RNAs.
JD052412 - Sequence 33436 from Patent EP1572962.
LF333229 - JP 2014500723-A/140732: Polycomb-Associated Non-Coding RNAs.
JD074663 - Sequence 55687 from Patent EP1572962.
JD060804 - Sequence 41828 from Patent EP1572962.
JD163750 - Sequence 144774 from Patent EP1572962.
JD092473 - Sequence 73497 from Patent EP1572962.
LF333232 - JP 2014500723-A/140735: Polycomb-Associated Non-Coding RNAs.
JD400750 - Sequence 381774 from Patent EP1572962.
JD158428 - Sequence 139452 from Patent EP1572962.
JD235546 - Sequence 216570 from Patent EP1572962.
LF333234 - JP 2014500723-A/140737: Polycomb-Associated Non-Coding RNAs.
JD392496 - Sequence 373520 from Patent EP1572962.
JD037343 - Sequence 18367 from Patent EP1572962.
JD399716 - Sequence 380740 from Patent EP1572962.
JD419297 - Sequence 400321 from Patent EP1572962.
JD369072 - Sequence 350096 from Patent EP1572962.
JD455606 - Sequence 436630 from Patent EP1572962.
LF333236 - JP 2014500723-A/140739: Polycomb-Associated Non-Coding RNAs.
JD497329 - Sequence 478353 from Patent EP1572962.
JD392710 - Sequence 373734 from Patent EP1572962.
JD189691 - Sequence 170715 from Patent EP1572962.
JD185484 - Sequence 166508 from Patent EP1572962.
JD488425 - Sequence 469449 from Patent EP1572962.
JD533278 - Sequence 514302 from Patent EP1572962.
JD301068 - Sequence 282092 from Patent EP1572962.
JD284299 - Sequence 265323 from Patent EP1572962.
JD411091 - Sequence 392115 from Patent EP1572962.
JD506483 - Sequence 487507 from Patent EP1572962.
LF333238 - JP 2014500723-A/140741: Polycomb-Associated Non-Coding RNAs.
JD236695 - Sequence 217719 from Patent EP1572962.
JD293813 - Sequence 274837 from Patent EP1572962.
LF333240 - JP 2014500723-A/140743: Polycomb-Associated Non-Coding RNAs.
DL491440 - Novel nucleic acids.
DL490061 - Novel nucleic acids.
LF333241 - JP 2014500723-A/140744: Polycomb-Associated Non-Coding RNAs.
MA568766 - JP 2018138019-A/140692: Polycomb-Associated Non-Coding RNAs.
MA568767 - JP 2018138019-A/140693: Polycomb-Associated Non-Coding RNAs.
MA568770 - JP 2018138019-A/140696: Polycomb-Associated Non-Coding RNAs.
MA568773 - JP 2018138019-A/140699: Polycomb-Associated Non-Coding RNAs.
MA568774 - JP 2018138019-A/140700: Polycomb-Associated Non-Coding RNAs.
MA568777 - JP 2018138019-A/140703: Polycomb-Associated Non-Coding RNAs.
MA568778 - JP 2018138019-A/140704: Polycomb-Associated Non-Coding RNAs.
MA568782 - JP 2018138019-A/140708: Polycomb-Associated Non-Coding RNAs.
MA568783 - JP 2018138019-A/140709: Polycomb-Associated Non-Coding RNAs.
MA568784 - JP 2018138019-A/140710: Polycomb-Associated Non-Coding RNAs.
MA568786 - JP 2018138019-A/140712: Polycomb-Associated Non-Coding RNAs.
MA568788 - JP 2018138019-A/140714: Polycomb-Associated Non-Coding RNAs.
MA568793 - JP 2018138019-A/140719: Polycomb-Associated Non-Coding RNAs.
MA568795 - JP 2018138019-A/140721: Polycomb-Associated Non-Coding RNAs.
MA568797 - JP 2018138019-A/140723: Polycomb-Associated Non-Coding RNAs.
MA568802 - JP 2018138019-A/140728: Polycomb-Associated Non-Coding RNAs.
MA568805 - JP 2018138019-A/140731: Polycomb-Associated Non-Coding RNAs.
MA568806 - JP 2018138019-A/140732: Polycomb-Associated Non-Coding RNAs.
MA568809 - JP 2018138019-A/140735: Polycomb-Associated Non-Coding RNAs.
MA568811 - JP 2018138019-A/140737: Polycomb-Associated Non-Coding RNAs.
MA568813 - JP 2018138019-A/140739: Polycomb-Associated Non-Coding RNAs.
MA568815 - JP 2018138019-A/140741: Polycomb-Associated Non-Coding RNAs.
MA568817 - JP 2018138019-A/140743: Polycomb-Associated Non-Coding RNAs.
MA568818 - JP 2018138019-A/140744: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_rhoPathway - Rho cell motility signaling pathway
h_integrinPathway - Integrin Signaling Pathway
h_cell2cellPathway - Cell to Cell Adhesion Signaling

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000211998.1, ENST00000211998.2, ENST00000211998.3, ENST00000211998.4, ENST00000211998.5, ENST00000211998.6, ENST00000211998.7, ENST00000211998.8, ENST00000211998.9, hCG_2024635 , HEL114 , NM_014000, uc317clk.1, uc317clk.2, V9HWK2, V9HWK2_HUMAN, VCL
UCSC ID: ENST00000211998.10_10
RefSeq Accession: NM_014000.3

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene VCL:
dcm-ov (Dilated Cardiomyopathy Overview)
hyper-card (Hypertrophic Cardiomyopathy Overview)

-  Gene Model Information
  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.