Human Gene VPS11 (ENST00000621676.5_4) from GENCODE V47lift37
  Description: VPS11 core subunit of CORVET and HOPS complexes, transcript variant 14 (from RefSeq NR_165454.1)
Gencode Transcript: ENST00000621676.5_4
Gencode Gene: ENSG00000160695.16_13
Transcript (Including UTRs)
   Position: hg19 chr11:118,938,529-118,952,682 Size: 14,154 Total Exon Count: 17 Strand: +
Coding Region
   Position: hg19 chr11:118,938,535-118,952,333 Size: 13,799 Coding Exon Count: 17 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
Microarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:118,938,529-118,952,682)mRNA (may differ from genome)Protein (939 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: VPS11
Diseases sorted by gene-association score: leukodystrophy, hypomyelinating, 12* (1579), brain small vessel disease with or without ocular anomalies* (283), seizure disorder (3)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -99.80349-0.286 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 BrowserGenome Browser
Gene DetailsGene Details  Gene DetailsGene Details
Gene SorterGene Sorter  Gene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Descriptions from all associated GenBank mRNAs
  AK023279 - Homo sapiens cDNA FLJ13217 fis, clone NT2RP4001656, weakly similar to VACUOLAR BIOGENESIS PROTEIN END1.
LF384542 - JP 2014500723-A/192045: Polycomb-Associated Non-Coding RNAs.
AB027508 - Homo sapiens mRNA for hVPS11, complete cds.
AK056701 - Homo sapiens cDNA FLJ32139 fis, clone PLACE5000037, highly similar to Vacuolar protein sorting 11.
AK223158 - Homo sapiens mRNA for vacuolar protein sorting 11 (yeast homolog) variant, clone: LNG11645.
AL834218 - Homo sapiens mRNA; cDNA DKFZp564P2364 (from clone DKFZp564P2364).
BC065563 - Homo sapiens vacuolar protein sorting 11 homolog (S. cerevisiae), mRNA (cDNA clone MGC:74765 IMAGE:6144541), complete cds.
AK302973 - Homo sapiens cDNA FLJ54956 complete cds, highly similar to Vacuolar protein sorting 11.
AF308800 - Homo sapiens vacuolar protein sorting protein 11 (VPS11) mRNA, complete cds.
AB527816 - Synthetic construct DNA, clone: pF1KB8507, Homo sapiens VPS11 gene for vacuolar protein sorting 11 homolog, without stop codon, in Flexi system.
AF258558 - Homo sapiens PP3476 mRNA, complete cds.
BC012051 - Homo sapiens vacuolar protein sorting 11 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:4640302), partial cds.
AK026012 - Homo sapiens cDNA: FLJ22359 fis, clone HRC06443.
CU680178 - Synthetic construct Homo sapiens gateway clone IMAGE:100018972 5' read VPS11 mRNA.
KJ902886 - Synthetic construct Homo sapiens clone ccsbBroadEn_12280 VPS11 gene, encodes complete protein.
JD249484 - Sequence 230508 from Patent EP1572962.
JD483102 - Sequence 464126 from Patent EP1572962.
JD168728 - Sequence 149752 from Patent EP1572962.
JD039884 - Sequence 20908 from Patent EP1572962.
JD097040 - Sequence 78064 from Patent EP1572962.
JD211779 - Sequence 192803 from Patent EP1572962.
JD420051 - Sequence 401075 from Patent EP1572962.
JD389159 - Sequence 370183 from Patent EP1572962.
JD079186 - Sequence 60210 from Patent EP1572962.
JD515931 - Sequence 496955 from Patent EP1572962.
JD539601 - Sequence 520625 from Patent EP1572962.
JD273836 - Sequence 254860 from Patent EP1572962.
JD380549 - Sequence 361573 from Patent EP1572962.
JD431822 - Sequence 412846 from Patent EP1572962.
MA620119 - JP 2018138019-A/192045: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A0A087WXL6, A0A087WXL6_HUMAN, ENST00000621676.1, ENST00000621676.2, ENST00000621676.3, ENST00000621676.4, hCG_39399 , NR_165454, uc327tuf.1, uc327tuf.2, VPS11
UCSC ID: ENST00000621676.5_4
RefSeq Accession: NR_165447.1

-  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.