Human Gene VASH2 (uc001hjx.3)
  Description: Homo sapiens vasohibin 2 (VASH2), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:213,123,887-213,164,927 Size: 41,041 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr1:213,125,080-213,161,926 Size: 36,847 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:213,123,887-213,164,927)mRNA (may differ from genome)Protein (290 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMGIneXtProt
OMIMPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: VASH2_HUMAN
DESCRIPTION: RecName: Full=Vasohibin-2; AltName: Full=Vasohibin-like protein;
FUNCTION: Angiogenesis inhibitor. Inhibits network formation by endothelial cells.
DEVELOPMENTAL STAGE: Expressed in various embryonic organs at 6 to 12 embryonic weeks. Detected in vessels from 20-week embryonic organs as well as in endothelial cells from large vessels in neonate.
INDUCTION: By VEGF.
SIMILARITY: Belongs to the vasohibin family.
SEQUENCE CAUTION: Sequence=CAH71916.1; Type=Erroneous initiation; Sequence=CAH71918.1; Type=Erroneous initiation;

-  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


-  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.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 7.89 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 28.06 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 -169.30399-0.424 Picture PostScript Text
3' UTR -741.533001-0.247 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
  Pfam Domains:
PF14822 - Vasohibin

ModBase Predicted Comparative 3D Structure on Q86V25
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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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0000768 syncytium formation by plasma membrane fusion
GO:0001938 positive regulation of endothelial cell proliferation
GO:0045026 plasma membrane fusion
GO:0045765 regulation of angiogenesis
GO:0045766 positive regulation of angiogenesis
GO:0060674 placenta blood vessel development
GO:0060711 labyrinthine layer development
GO:0060716 labyrinthine layer blood vessel development

Cellular Component:
GO:0005576 extracellular region
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  LF211777 - JP 2014500723-A/19280: Polycomb-Associated Non-Coding RNAs.
LF205514 - JP 2014500723-A/13017: Polycomb-Associated Non-Coding RNAs.
AK290973 - Homo sapiens cDNA FLJ77735 complete cds.
AK096605 - Homo sapiens cDNA FLJ39286 fis, clone OCBBF2011855.
AK022567 - Homo sapiens cDNA FLJ12505 fis, clone NT2RM2001699.
BC053836 - Homo sapiens vasohibin 2, mRNA (cDNA clone MGC:59727 IMAGE:5802700), complete cds.
JD361402 - Sequence 342426 from Patent EP1572962.
BC051856 - Homo sapiens vasohibin 2, mRNA (cDNA clone MGC:60211 IMAGE:6067012), complete cds.
JD370460 - Sequence 351484 from Patent EP1572962.
BC028194 - Homo sapiens vasohibin 2, mRNA (cDNA clone MGC:39884 IMAGE:5164251), complete cds.
JD387418 - Sequence 368442 from Patent EP1572962.
JD456950 - Sequence 437974 from Patent EP1572962.
AK302675 - Homo sapiens cDNA FLJ54807 complete cds, highly similar to Vasohibin-like protein.
JD462266 - Sequence 443290 from Patent EP1572962.
KJ903227 - Synthetic construct Homo sapiens clone ccsbBroadEn_12621 VASH2 gene, encodes complete protein.
KJ894736 - Synthetic construct Homo sapiens clone ccsbBroadEn_04130 VASH2 gene, encodes complete protein.
AY834202 - Homo sapiens FLJ12505 protein (FLJ12505) mRNA, complete cds.
JD193145 - Sequence 174169 from Patent EP1572962.
JD485030 - Sequence 466054 from Patent EP1572962.
JD463385 - Sequence 444409 from Patent EP1572962.
JD178309 - Sequence 159333 from Patent EP1572962.
HM005535 - Homo sapiens clone HTL-T-222 testicular tissue protein Li 222 mRNA, complete cds.
JD189085 - Sequence 170109 from Patent EP1572962.
KJ906322 - Synthetic construct Homo sapiens clone ccsbBroadEn_15992 VASH2 gene, encodes complete protein.
LF321411 - JP 2014500723-A/128914: Polycomb-Associated Non-Coding RNAs.
LF321410 - JP 2014500723-A/128913: Polycomb-Associated Non-Coding RNAs.
JD435833 - Sequence 416857 from Patent EP1572962.
JD562864 - Sequence 543888 from Patent EP1572962.
JD167161 - Sequence 148185 from Patent EP1572962.
JD052640 - Sequence 33664 from Patent EP1572962.
LF321403 - JP 2014500723-A/128906: Polycomb-Associated Non-Coding RNAs.
JD538963 - Sequence 519987 from Patent EP1572962.
JD375732 - Sequence 356756 from Patent EP1572962.
MA556988 - JP 2018138019-A/128914: Polycomb-Associated Non-Coding RNAs.
MA556987 - JP 2018138019-A/128913: Polycomb-Associated Non-Coding RNAs.
MA556980 - JP 2018138019-A/128906: Polycomb-Associated Non-Coding RNAs.
MA447354 - JP 2018138019-A/19280: Polycomb-Associated Non-Coding RNAs.
MA441091 - JP 2018138019-A/13017: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001136474, NP_001129947, Q2VT46, Q5VTE7, Q5VTE9, Q7Z6E3, Q86V25, Q8IZ24, Q9H9W5, VASH2_HUMAN, VASHL
UCSC ID: uc001hjx.3
RefSeq Accession: NM_001136474
Protein: Q86V25 (aka VASH2_HUMAN)
CCDS: CCDS44315.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001136474.1
exon count: 9CDS single in 3' UTR: no RNA size: 4273
ORF size: 873CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1682.50frame 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.