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VMO1 Gene

protein-coding   GIFtS: 41
GCID: GC17M004688

Vitelline Membrane Outer Layer 1 Homolog (Chicken)

  Search for VMO1
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Vitelline Membrane Outer Layer 1 Homolog (Chicken)1 2
ERGA63502
PRO210552
Vitelline Membrane Outer Layer Protein 1 Homolog2

External Ids:    HGNC: 303871   Entrez Gene: 2840132   Ensembl: ENSG000001828537   UniProtKB: Q7Z5L03   

Export aliases for VMO1 gene to outside databases

Previous GC identifers: GC17M004636 GC17M004576


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for VMO1 Gene:
VMO1 (vitelline membrane outer layer 1 homolog (chicken)) is a protein-coding gene.


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000017.11  NC_018928.2  NT_010718.17  
Regulatory elements:
   Regulatory transcription factor binding sites in the VMO1 gene promoter:
         STAT1   AP-1   ATF-2   Olf-1   FOXD1   STAT1beta   Lmo2   STAT1alpha   c-Jun   LyF-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidVMO1 promoter sequence
   Search Chromatin IP Primers for VMO1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat VMO1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 17p13.2   Ensembl cytogenetic band:  17p13.2   HGNC cytogenetic band: 17p13.2

VMO1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
VMO1 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M004688:  view genomic region     (about GC identifiers)

Start:
4,688,580 bp from pter      End:
4,689,729 bp from pter
Size:
1,150 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: VMO1_HUMAN, Q7Z5L0 (See protein sequence)
Recommended Name: Vitelline membrane outer layer protein 1 homolog precursor  
Size: 202 amino acids; 21534 Da
Secondary accessions: C9JQ15 E9PAU9 E9PGP4 Q3SXP1 Q8IUY1
Alternative splicing: 4 isoforms:  Q7Z5L0-1   Q7Z5L0-2   Q7Z5L0-3   Q7Z5L0-4   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for VMO1: NX_Q7Z5L0

Explore proteomics data for VMO1 at MOPED


See VMO1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (4 alternative transcripts): 
NP_001138411.1  NP_001138412.1  NP_001138413.1  NP_872372.1  

ENSEMBL proteins: 
 ENSP00000408166   ENSP00000390450   ENSP00000328397   ENSP00000346133  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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1 InterPro protein domain:
 IPR005515 VOMI

Graphical View of Domain Structure for InterPro Entry Q7Z5L0

ProtoNet protein and cluster: Q7Z5L0

UniProtKB/Swiss-Prot: VMO1_HUMAN, Q7Z5L0
Similarity: Belongs to the VMO1 family


VMO1 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Phenotypes:
     2 GenomeRNAi human phenotypes for VMO1:
 Decreased viability of wild-ty  Increased G1 DNA content 

Animal Models:
   inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for VMO1
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hsa-mir-335-5p (MIRT017130)

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
VMO1_HUMAN, Q7Z5L0: Secreted (Probable)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
extracellular4
cytosol1
endoplasmic reticulum1
mitochondrion1
peroxisome1

Gene Ontology (GO): 2 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005576extracellular region ----
GO:0070062extracellular vesicular exosome IDA19056867

VMO1 for ontologies           About GeneDecksing


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for VMO1
Interactions:

    Search GeneGlobe Interaction Network for VMO1

Gene Ontology (GO): 1 biological process term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0030704vitelline membrane formation IEA--

VMO1 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
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Browse Tocris compounds for VMO1



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for VMO1 gene (4 alternative transcripts): 
NM_001144939.1  NM_001144940.1  NM_001144941.1  NM_182566.2  

Unigene Cluster for VMO1:

Vitelline membrane outer layer 1 homolog (chicken)
Hs.122561  [show with all ESTs]
Unigene Representative Sequence: BI838614
4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000441199 ENST00000416307 ENST00000328739(uc002fyx.3 uc010vsh.2 uc010vsi.2)
ENST00000354194(uc002fyy.3)
miRNA
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Primer
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Additional mRNA sequence: 

AF521892.1 AY359099.1 BC038467.1 BC104194.2 BC104195.1 

6 DOTS entries:

DT.436034  DT.80102098  DT.92418266  DT.95365922  DT.100022754  DT.100755071 

Selected AceView cDNA sequences (see all 34):

BQ575991 CA418809 AY359099 T35723 CD367284 CB528310 AI096808 AA371985 
BU726217 BM693934 CD367473 AW963390 BM704806 NM_182566 AF521892 BE218112 
BI836994 AI373466 BE218357 BC038467 BU684331 AI478392 CD369385 BE669879 

GeneLoc Exon Structure

3 Alternative Splicing Database (ASD) splice patterns (SP) for VMO1    About this scheme

ExUns: 1 ^ 2a · 2b ^ 3a · 3b
SP1:              -               
SP2:                              
SP3:        -     -               


ECgene alternative splicing isoforms for VMO1

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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VMO1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: TGCACAGGCA
VMO1 Expression
About this image

VMO1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

VMO1 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.122561
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for VMO1

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of animals.

Orthologs for VMO1 gene from Selected species (see all 13)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Vmo11 , 5 vitelline membrane outer layer 1 homolog (chicken)1, 5 73.3(n)1
71.64(a)1
  11 (42.99 cM)5
3279561  NM_001013607.11  NP_001013625.11 
 705135165 
chicken
(Gallus gallus)
Aves VMO11 vitelline membrane outer layer 1 homolog (chicken) 58.28(n)
59.12(a)
  418974  NM_001167761.1  NP_001161233.1 
lizard
(Anolis carolinensis)
Reptilia VMO16
vitelline membrane outer layer 1 homolog (chicken)...
39(a)
1 ↔ 1
6(35096256-35101548)
tropical clawed frog
(Xenopus tropicalis)
Amphibia LOC1017311301 vitelline membrane outer layer protein 1 homolog 57.37(n)
56.97(a)
  101731130  XM_004918995.1  XP_004919052.1 
zebrafish
(Danio rerio)
Actinopterygii LOC7933691 vitelline membrane outer layer protein 1 homolog 54.27(n)
53.66(a)
  793369  XM_001332044.5  XP_001332080.2 
worm
(Caenorhabditis elegans)
Secernentea Y57G11A.26
Y38H6C.196
(see all 12)
Protein Y38H6C.19 (Y38H6C.19) mRNA, complete cds
(see all 12)
8(a)
36(a)
(see all 12)
many → 1
many → 1
(see all 12)
IV(14517023-14519536) WBGene00013290
V(20552300-20553053) WBGene00012631


ENSEMBL Gene Tree for VMO1 (if available)
TreeFam Gene Tree for VMO1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for VMO1 (see all 77)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 17 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs584282681,2
C,F--4688183(+) AATGCC/TAAGTT 4 -- int11Minor allele frequency- T:0.50WA 2
rs1380924701,2
--4688250(+) CATGGC/TGTCTC 4 -- int10--------
rs1857265731,2
C--4688338(+) CACGGC/TGAAAC 4 -- int10--------
rs1886094281,2
--4688400(+) GTGGCA/GGGCGC 4 -- int10--------
rs1119131961,2
C,F--4688519(+) GCGATT/ACTCCG 4 -- int12Minor allele frequency- A:0.50CSA 4
rs713678551,2
C--4688530(+) TCTCAAATAAAT 
 AAATT
/-
AATAA
4 -- int11Minor allele frequency- -:0.50NA 2
rs1142177691,2
C,F--4688600(+) TTTAAT/CAGCAA 4 -- ut311Minor allele frequency- C:0.03WA 118
rs1471640891,2
--4688638(+) AGAGAC/GCGGCG 4 -- ut310--------
rs1408005961,2
C,F--4688682(+) AGCGCG/ACGTCG 5 /A /V mis1 ut312Minor allele frequency- A:0.00NA EU 5307
rs1929625591,2
--4688704(+) GTCATC/TGCCGA 5 N D mis1 ut310--------

HapMap Linkage Disequilibrium report for VMO1 (4688580 - 4689729 bp)

Structural Variations
     Database of Genomic Variants (DGV) 3 variations for VMO1:    About this table    
Variant IDTypeSubtypePubMed ID
nsv907618CNV Loss21882294
nsv833346CNV Loss17160897
nsv833347CNV Loss17160897

Site Specific Mutation Identification with PCR Assays
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for VMO1 gene integrated from 10 sources:
(articles sorted by number of sources associating them with VMO1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Analysis and comparison of proteomic profiles of tear fluid from human, cow, sheep, and camel eyes. (PubMed id 22025569)1, 3 Shamsi F.A....Wu K. (amp 2011)
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  3. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PubMed id 15340161)1, 2 Zhang Z. and Henzel W.J. (Protein Sci. 2004)
  4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (Genome Res. 2003)
  5. Large-scale proteomics and phosphoproteomics of urinary exosomes. (PubMed id 19056867)1 Gonzales P.A....Knepper M.A. (J. Am. Soc. Nephrol. 2009)
  6. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)2 Zody M.C.... Nusbaum C. (Nature 2006)
  7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
  8. (PubMed id )2 

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 284013 HGNC: 30387 AceView: LOC284013 Ensembl:ENSG00000182853 euGenes: HUgn284013
ECgene: VMO1 H-InvDB: VMO1

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for VMO1 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for VMO1 gene:
Search GeneIP for patents involving VMO1

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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