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    VIRMA vir like m6A methyltransferase associated [ Homo sapiens (human) ]

    Gene ID: 25962, updated on 2-May-2024

    Summary

    Official Symbol
    VIRMAprovided by HGNC
    Official Full Name
    vir like m6A methyltransferase associatedprovided by HGNC
    Primary source
    HGNC:HGNC:24500
    See related
    Ensembl:ENSG00000164944 MIM:616447; AllianceGenome:HGNC:24500
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    MSTP054; fSAP121; KIAA1429
    Summary
    Enables RNA binding activity. Involved in mRNA alternative polyadenylation and mRNA methylation. Located in cytosol and nuclear speck. Colocalizes with RNA N6-methyladenosine methyltransferase complex. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in testis (RPKM 11.6), ovary (RPKM 8.4) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See VIRMA in Genome Data Viewer
    Location:
    8q22.1
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (94487689..94553469, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (95612521..95678291, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (95499917..95565697, complement)

    Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein S4X pseudogene 10 Neighboring gene RAD54 homolog B Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr8:95447028-95447528 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27630 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19366 Neighboring gene NANOG hESC enhancer GRCh37_chr8:95456748-95457280 Neighboring gene fibrinogen silencer binding protein Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:95480258-95480884 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:95480885-95481510 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19367 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27631 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:95546863-95547362 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27632 Neighboring gene ribosomal protein L31 pseudogene Neighboring gene VIRMA divergent transcript Neighboring gene long intergenic non-protein coding RNA 2894

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC138493, MGC141940, DKFZp434I116, DKFZp781B2117

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA modification IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mRNA processing IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in mRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of RNA N6-methyladenosine methyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of RNA N6-methyladenosine methyltransferase complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of RNA N6-methyladenosine methyltransferase complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in nuclear body IDA
    Inferred from Direct Assay
    more info
     
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 

    General protein information

    Preferred Names
    protein virilizer homolog
    Names
    functional spliceosome-associated protein 121
    virilizer homolog

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_015496.5NP_056311.2  protein virilizer homolog isoform 1

      See identical proteins and their annotated locations for NP_056311.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AA731668, AB037850, AC023632, AL832487, BC113380
      Consensus CDS
      CCDS34923.1
      UniProtKB/Swiss-Prot
      Q2M1N0, Q69YN4, Q6AHX9, Q6NT78, Q7Z6C7, Q8IXH4, Q9BTH4, Q9H9C9, Q9NWR3, Q9P2B8, Q9UFW1
      Related
      ENSP00000297591.5, ENST00000297591.10
      Conserved Domains (2) summary
      pfam15502
      Location:17031808
      MPLKIP; M-phase-specific PLK1-interacting protein
      pfam15912
      Location:5235
      VIR_N; Virilizer, N-terminal
    2. NM_183009.3NP_892121.1  protein virilizer homolog isoform 2

      See identical proteins and their annotated locations for NP_892121.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AF116724, BC113380
      Consensus CDS
      CCDS47894.1
      UniProtKB/Swiss-Prot
      Q69YN4
      Related
      ENSP00000398390.2, ENST00000421249.2
      Conserved Domains (1) summary
      pfam15912
      Location:5235
      VIR_N; Virilizer, N-terminal

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000008.11 Reference GRCh38.p14 Primary Assembly

      Range
      94487689..94553469 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047421677.1XP_047277633.1  protein virilizer homolog isoform X1

    2. XM_047421678.1XP_047277634.1  protein virilizer homolog isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060932.1 Alternate T2T-CHM13v2.0

      Range
      95612521..95678291 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054360260.1XP_054216235.1  protein virilizer homolog isoform X1

    2. XM_054360261.1XP_054216236.1  protein virilizer homolog isoform X1