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VCPKMT valosin containing protein lysine methyltransferase [ Homo sapiens (human) ]

Gene ID: 79609, updated on 24-Nov-2020

Summary

Official Symbol
VCPKMTprovided by HGNC
Official Full Name
valosin containing protein lysine methyltransferaseprovided by HGNC
Primary source
HGNC:HGNC:20352
See related
Ensembl:ENSG00000100483 MIM:615260
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
VCP-KMT; METTL21D; C14orf138
Expression
Ubiquitous expression in bone marrow (RPKM 3.1), testis (RPKM 3.0) and 25 other tissues See more
Orthologs

Genomic context

See VCPKMT in Genome Data Viewer
Location:
14q21.3
Exon count:
9
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 14 NC_000014.9 (50100456..50116572, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (50572967..50583626, complement)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1599 Neighboring gene ribosomal protein S15a pseudogene 2 Neighboring gene RN7SK pseudogene 193 Neighboring gene SOS Ras/Rho guanine nucleotide exchange factor 2 Neighboring gene L-2-hydroxyglutarate dehydrogenase Neighboring gene microRNA 4504

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?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ13920

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATPase binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein-lysine N-methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein-lysine N-methyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
protein-lysine N-methyltransferase activity TAS
Traceable Author Statement
more info
 
Process Evidence Code Pubs
negative regulation of ATPase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
peptidyl-lysine methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peptidyl-lysine methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
peptidyl-lysine trimethylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peptidyl-lysine trimethylation IDA
Inferred from Direct Assay
more info
PubMed 
protein methylation TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
protein-lysine methyltransferase METTL21D
Names
VCP lysine methyltransferase
methyltransferase like 21D
methyltransferase-like protein 21D
valosin containing protein lysine (K) methyltransferase

NCBI Reference Sequences (RefSeq)

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_001040662.2NP_001035752.1  protein-lysine methyltransferase METTL21D isoform b

    See identical proteins and their annotated locations for NP_001035752.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the 3' coding region, compared to variant 1, which results in a shorter protein (isoform B), compared to isoform A
    Source sequence(s)
    AK023982, AL109758, BI767189
    Consensus CDS
    CCDS41951.1
    UniProtKB/Swiss-Prot
    Q9H867
    Related
    ENSP00000379200.2, ENST00000395859.2
    Conserved Domains (1) summary
    pfam10294
    Location:22191
    Methyltransf_16; Lysine methyltransferase
  2. NM_024558.3NP_078834.2  protein-lysine methyltransferase METTL21D isoform a

    See identical proteins and their annotated locations for NP_078834.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (A).
    Source sequence(s)
    AK023982, AL109758, BI753530
    Consensus CDS
    CCDS9696.2
    UniProtKB/Swiss-Prot
    Q9H867
    Related
    ENSP00000379201.2, ENST00000395860.7
    Conserved Domains (1) summary
    pfam10294
    Location:22195
    Methyltransf_16; Lysine methyltransferase

RNA

  1. NR_049738.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the 5' coding region, compared to variant 1, which results in a frameshift and an early stop codon. The transcript is sufficiently abundant to represent as a RefSeq record: however, the predicted protein is not represented because the product is significantly truncated and the transcript is a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC027585, BC105118, BX247997
  2. NR_049739.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate splice site in the 5' coding region, compared to variant 1, which results in a frameshift and an early stop codon. The transcript is sufficiently abundant to represent as a RefSeq record: however, the predicted protein is not represented because the product is significantly truncated and the transcript is a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC027585, BC105118, BX247997
    Related
    ENST00000484763.1

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20201120

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000014.9 Reference GRCh38.p13 Primary Assembly

    Range
    50100456..50116572 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017021641.2XP_016877130.1  protein-lysine methyltransferase METTL21D isoform X3

  2. XM_017021640.2XP_016877129.1  protein-lysine methyltransferase METTL21D isoform X2

  3. XM_005268060.4XP_005268117.1  protein-lysine methyltransferase METTL21D isoform X1

    Conserved Domains (1) summary
    pfam10294
    Location:22195
    Methyltransf_16; Lysine methyltransferase
  4. XM_024449709.1XP_024305477.1  protein-lysine methyltransferase METTL21D isoform X4

    Related
    ENSP00000437113.1, ENST00000491402.5
    Conserved Domains (1) summary
    cl17173
    Location:22122
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...

RNA

  1. XR_943531.2 RNA Sequence

    Related
    ENST00000569518.5
  2. XR_001750552.2 RNA Sequence

  3. XR_001750551.2 RNA Sequence

  4. XR_943532.2 RNA Sequence

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