Human Gene VSTM1 (uc002qcw.4)
Description: Homo sapiens V-set and transmembrane domain containing 1 (VSTM1), mRNA.
Transcript (Including UTRs)
Position: hg19 chr19:54,544,080-54,567,207 Size: 23,128 Total Exon Count: 9 Strand: -
Coding Region
Position: hg19 chr19:54,544,215-54,567,031 Size: 22,817 Coding Exon Count: 9
Data last updated at UCSC: 2013-06-14
Sequence and Links to Tools and Databases
Comments and Description Text from UniProtKB
ID: VSTM1_HUMAN
DESCRIPTION: RecName: Full=V-set and transmembrane domain-containing protein 1; Flags: Precursor;
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (Potential).SIMILARITY: Contains 1 Ig-like V-type (immunoglobulin-like) domain.
Primer design for this transcript
Genetic Association Studies of Complex Diseases and Disorders
Genetic Association Database (archive): VSTM1
CDC HuGE Published Literature: VSTM1
Positive Disease Associations: Heart Failure
Related Studies: Heart Failure , , .
[PubMed 0 ]
Comparative Toxicogenomics Database (CTD)
The following chemicals interact with this gene
Common Gene Haplotype Alleles
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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
Microarray Expression Data
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mRNA Secondary Structure of 3' and 5' UTRs
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 IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR003599 - Ig_sub
Pfam Domains: PF00047 - Immunoglobulin domain
PF13895 - Immunoglobulin domain
PF13927 - Immunoglobulin domain
SCOP Domains: 48726 - Immunoglobulin
ModBase Predicted Comparative 3D Structure on Q6UX27
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.
Mouse Rat Zebrafish D. melanogaster C. elegans S. cerevisiae
No ortholog No ortholog No ortholog No ortholog No ortholog No ortholog
Gene Ontology (GO) Annotations with Structured Vocabulary
Descriptions from all associated GenBank mRNAs
LP896142 - Sequence 1006 from Patent EP3253886.AX721201 - Sequence 161 from Patent WO0220754.AY358542 - Homo sapiens clone DNA119510 LAIR hlog (UNQ3033) mRNA, complete cds.BC100942 - Homo sapiens V-set and transmembrane domain containing 1, mRNA (cDNA clone MGC:119160 IMAGE:40004094), complete cds.BC100943 - Homo sapiens V-set and transmembrane domain containing 1, mRNA (cDNA clone MGC:119161 IMAGE:40004095), complete cds.FN398145 - Homo sapiens mRNA for V-set and transmembrane domain containing 1 (VSTM1 gene).DQ479397 - Homo sapiens OSCAR-like transcript-1 mRNA, complete cds.FJ584316 - Homo sapiens V-set and transmembrane domain containing 1 isoform a (VSTM1) mRNA, complete cds.FJ584317 - Homo sapiens V-set and transmembrane domain containing 1 isoform a (VSTM1) mRNA, complete cds.FJ584318 - Homo sapiens V-set and transmembrane domain containing 1 isoform b (VSTM1) mRNA, complete cds.FJ584319 - Homo sapiens V-set and transmembrane domain containing 1 isoform c (VSTM1) mRNA, complete cds.FJ584320 - Homo sapiens V-set and transmembrane domain containing 1 isoform d (VSTM1) mRNA, complete cds.FJ882051 - Homo sapiens V-set and transmembrane domain containing 1 isoform e (VSTM1) mRNA, complete cds, alternatively spliced.KJ904134 - Synthetic construct Homo sapiens clone ccsbBroadEn_13528 VSTM1 gene, encodes complete protein.
Other Names for This Gene
Alternate Gene Symbols: D2DJS3, NM_198481, NP_940883, Q496B6, Q496B7, Q6UX27, UNQ3033/PRO9835, VSTM1_HUMANUCSC ID: uc002qcw.4RefSeq Accession: NM_198481
Protein: Q6UX27
(aka VSTM1_HUMAN)
CCDS: CCDS12872.1
Gene Model Information
category:
coding
nonsense-mediated-decay:
no
RNA accession:
NM_198481.3
exon count:
9 CDS single in 3' UTR:
no
RNA size:
1034
ORF size:
711 CDS single in intron:
no
Alignment % ID:
100.00
txCdsPredict score:
1266.00 frame shift in genome:
no
% Coverage:
98.84
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
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Methods, Credits, and Use Restrictions
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