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Aliases for VIRMA Gene

Aliases for VIRMA Gene

  • Vir Like M6A Methyltransferase Associated 2
  • KIAA1429 2 3 3 4 5
  • Functional Spliceosome-Associated Protein 121 2 3
  • Virilizer Homolog 2 3
  • Protein Virilizer Homolog 3
  • MSTP054 3
  • FSAP121 3

External Ids for VIRMA Gene

Previous HGNC Symbols for VIRMA Gene

  • KIAA1429

Summaries for VIRMA Gene

GeneCards Summary for VIRMA Gene

VIRMA (Vir Like M6A Methyltransferase Associated) is a Protein Coding gene. Diseases associated with VIRMA include Retinitis Pigmentosa 42.

UniProtKB/Swiss-Prot for VIRMA Gene

  • Required for N6-methyladenosine (m6A) methylation of mRNAs, a modification that plays a role in the efficiency of mRNA splicing and processing (PubMed:24981863). Involved in mRNA splicing regulation, probably via its function in m6A methylation (Probable).

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VIRMA Gene

Genomics for VIRMA Gene

Regulatory Elements for VIRMA Gene

Enhancers for VIRMA Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH08G094718 1.2 ENCODE 59.7 -166.6 -166553 2.9 MLX CREB3L1 AGO1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 ZNF548 SP3 VIRMA RBM12B INTS8 C8orf37 ENSG00000272509 ESRP1 ENSG00000253704 DPY19L4 ENSG00000254307
GH08G093955 1.2 ENCODE dbSUPER 16.4 +597.6 597615 0.8 PKNOX1 SIN3A FEZF1 YY1 ZNF766 ZNF548 ZNF592 SREBF1 CREB3 ZNF579 RBM12B VIRMA INTS8 FAM92A LINC00535 LOC105375645 PDP1 ENSG00000253722 PIR51498 PSMA2P2
GH08G095267 1.2 ENCODE 13.8 -716.0 -716019 3.4 CREB3L1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC TBX21 MEF2D SSRP1 INTS8 VIRMA C8orf37 MTERF3 TRS-AGA2-5 LINC01298
GH08G095064 1.5 Ensembl ENCODE dbSUPER 10.1 -513.3 -513328 5.3 FOXA2 MLX ARNT ZFP64 ARID4B SIN3A ZBTB7B TCF12 GATA2 FOS LOC105375650 ENSG00000254248 PLEKHF2 ENSG00000253878 TP53INP1 VIRMA MIR3150A
GH08G094552 1.2 ENCODE 12.1 -0.1 -79 2.9 CREB3L1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC VIRMA RAD54B LOC101926977
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around VIRMA on UCSC Golden Path with GeneCards custom track

Promoters for VIRMA Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000227203 29 2601 CREB3L1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC

Genomic Location for VIRMA Gene

Chromosome:
8
Start:
94,487,693 bp from pter
End:
94,553,529 bp from pter
Size:
65,837 bases
Orientation:
Minus strand

Genomic View for VIRMA Gene

Genes around VIRMA on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VIRMA Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VIRMA Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VIRMA Gene

Proteins for VIRMA Gene

  • Protein details for VIRMA Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q69YN4-VIR_HUMAN
    Recommended name:
    Protein virilizer homolog
    Protein Accession:
    Q69YN4
    Secondary Accessions:
    • Q2M1N0
    • Q6AHX9
    • Q6NT78
    • Q7Z6C7
    • Q8IXH4
    • Q9BTH4
    • Q9H9C9
    • Q9NWR3
    • Q9P2B8
    • Q9UFW1

    Protein attributes for VIRMA Gene

    Size:
    1812 amino acids
    Molecular mass:
    202025 Da
    Quaternary structure:
    • Associated component of the WMM complex, a N6-methyltransferase complex composed of WTAP, METTL3 and METTL14; possibly via its interaction with WTAP (PubMed:24981863). Interacts with WTAP (PubMed:24100041). Component of the WTAP complex composed of WTAP, ZC3H13, CBLL1, KIAA1429, RBM15, BCLAF1 and THRAP3 (PubMed:24100041).
    SequenceCaution:
    • Sequence=BAA91316.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAB14301.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAB55922.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for VIRMA Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VIRMA Gene

Post-translational modifications for VIRMA Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for VIRMA Gene

Domains & Families for VIRMA Gene

Gene Families for VIRMA Gene

Protein Domains for VIRMA Gene

Suggested Antigen Peptide Sequences for VIRMA Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q69YN4

UniProtKB/Swiss-Prot:

VIR_HUMAN :
  • Belongs to the vir family.
Family:
  • Belongs to the vir family.
genes like me logo Genes that share domains with VIRMA: view

Function for VIRMA Gene

Molecular function for VIRMA Gene

UniProtKB/Swiss-Prot Function:
Required for N6-methyladenosine (m6A) methylation of mRNAs, a modification that plays a role in the efficiency of mRNA splicing and processing (PubMed:24981863). Involved in mRNA splicing regulation, probably via its function in m6A methylation (Probable).

Gene Ontology (GO) - Molecular Function for VIRMA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 22681889
genes like me logo Genes that share ontologies with VIRMA: view
genes like me logo Genes that share phenotypes with VIRMA: view

Animal Models for VIRMA Gene

MGI Knock Outs for VIRMA:

Animal Model Products

miRNA for VIRMA Gene

miRTarBase miRNAs that target VIRMA

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for VIRMA Gene

Localization for VIRMA Gene

Subcellular locations from UniProtKB/Swiss-Prot for VIRMA Gene

Nucleus speckle. Nucleus, nucleoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for VIRMA gene
Compartment Confidence
nucleus 5
cytosol 5
extracellular 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for VIRMA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IEA,IDA 24100041
GO:0005829 cytosol IDA --
GO:0016604 nuclear body IDA --
GO:0016607 nuclear speck IEA,IDA 24100041
genes like me logo Genes that share ontologies with VIRMA: view

Pathways & Interactions for VIRMA Gene

SuperPathways for VIRMA Gene

No Data Available

Gene Ontology (GO) - Biological Process for VIRMA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
GO:0080009 mRNA methylation IMP 24981863
genes like me logo Genes that share ontologies with VIRMA: view

No data available for Pathways by source and SIGNOR curated interactions for VIRMA Gene

Drugs & Compounds for VIRMA Gene

No Compound Related Data Available

Transcripts for VIRMA Gene

Unigene Clusters for VIRMA Gene

KIAA1429:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for VIRMA Gene

No ASD Table

Relevant External Links for VIRMA Gene

GeneLoc Exon Structure for
VIRMA
ECgene alternative splicing isoforms for
VIRMA

Expression for VIRMA Gene

NURSA nuclear receptor signaling pathways regulating expression of VIRMA Gene:

VIRMA

SOURCE GeneReport for Unigene cluster for VIRMA Gene:

Hs.202238

Evidence on tissue expression from TISSUES for VIRMA Gene

  • Liver(4.7)
  • Nervous system(4.6)
  • Intestine(4.3)
  • Lung(4.3)
No Expression Related Data Available

Primer Products

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for VIRMA Gene

Orthologs for VIRMA Gene

This gene was present in the common ancestor of animals.

Orthologs for VIRMA Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia KIAA1429 35 34
  • 99.71 (n)
OneToOne
dog
(Canis familiaris)
Mammalia KIAA1429 34 35
  • 95.41 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 95 (a)
OneToMany
-- 35
  • 92 (a)
OneToMany
cow
(Bos Taurus)
Mammalia KIAA1429 34 35
  • 93.73 (n)
oppossum
(Monodelphis domestica)
Mammalia KIAA1429 35
  • 90 (a)
OneToOne
mouse
(Mus musculus)
Mammalia 1110037F02Rik 16 35 34
  • 89.91 (n)
rat
(Rattus norvegicus)
Mammalia RGD1559904 34
  • 89.49 (n)
chicken
(Gallus gallus)
Aves KIAA1429 34 35
  • 79.77 (n)
lizard
(Anolis carolinensis)
Reptilia KIAA1429 35
  • 84 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia kiaa1429 34
  • 70.35 (n)
Str.7330 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.9561 34
zebrafish
(Danio rerio)
Actinopterygii si:ch211-79l20.4 34 35
  • 58.87 (n)
fruit fly
(Drosophila melanogaster)
Insecta vir 35
  • 24 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 24 (a)
OneToOne
Species where no ortholog for VIRMA was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for VIRMA Gene

ENSEMBL:
Gene Tree for VIRMA (if available)
TreeFam:
Gene Tree for VIRMA (if available)

Paralogs for VIRMA Gene

Pseudogenes.org Pseudogenes for VIRMA Gene

genes like me logo Genes that share paralogs with VIRMA: view

No data available for Paralogs for VIRMA Gene

Variants for VIRMA Gene

Sequence variations from dbSNP and Humsavar for VIRMA Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type
rs1000051858 -- 94,516,747(+) CCTCC(G/T)TTTAT intron-variant
rs1000057673 -- 94,499,679(+) CAATA(A/G)TTACC intron-variant
rs1000127070 -- 94,510,305(+) TTTAC(A/C)TGTAT intron-variant
rs1000149430 -- 94,535,739(+) TGCGC(C/T)ACTGC intron-variant
rs1000203134 -- 94,536,072(+) TCCAC(C/G)CCACC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for VIRMA Gene

Variant ID Type Subtype PubMed ID
dgv7271n100 CNV gain 25217958
dgv7272n100 CNV gain 25217958
dgv7273n100 CNV gain 25217958
esv21754 CNV loss 19812545
esv2662586 CNV deletion 23128226
esv3584580 CNV gain 24956385
esv3618078 CNV loss 21293372
nsv438072 CNV loss 16468122
nsv611750 CNV loss 21841781

Variation tolerance for VIRMA Gene

Residual Variation Intolerance Score: 1.28% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.57; 56.07% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VIRMA Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
VIRMA

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VIRMA Gene

Disorders for VIRMA Gene

MalaCards: The human disease database

(1) MalaCards diseases for VIRMA Gene - From: DISEASES

Disorder Aliases PubMed IDs
retinitis pigmentosa 42
  • rp42
- elite association - COSMIC cancer census association via MalaCards
Search VIRMA in MalaCards View complete list of genes associated with diseases

Relevant External Links for VIRMA

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VIRMA
genes like me logo Genes that share disorders with VIRMA: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VIRMA Gene

Publications for VIRMA Gene

  1. Perturbation of m6A writers reveals two distinct classes of mRNA methylation at internal and 5' sites. (PMID: 24981863) Schwartz S. … Regev A. (Cell Rep 2014) 2 3 4 64
  2. Identification of Wilms' tumor 1-associating protein complex and its role in alternative splicing and the cell cycle. (PMID: 24100041) Horiuchi K. … Hamakubo T. (J. Biol. Chem. 2013) 2 3 4 64
  3. Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10718198) Nagase T. … Ohara O. (DNA Res. 2000) 2 3 4 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3 64

Products for VIRMA Gene

Sources for VIRMA Gene

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