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RBM38 RNA binding motif protein 38 [ Homo sapiens (human) ]

Gene ID: 55544, updated on 13-Mar-2020

Summary

Official Symbol
RBM38provided by HGNC
Official Full Name
RNA binding motif protein 38provided by HGNC
Primary source
HGNC:HGNC:15818
See related
Ensembl:ENSG00000132819 MIM:612428
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
RNPC1; SEB4B; SEB4D; HSRNASEB; dJ800J21.2
Expression
Broad expression in bone marrow (RPKM 68.1), lymph node (RPKM 23.9) and 18 other tissues See more
Orthologs

Genomic context

See RBM38 in Genome Data Viewer
Location:
20q13.31
Exon count:
6
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (57391396..57409333)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (55966454..55984389)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene nuclear-encoded mitochondrial tRNA-Leu (TAA) 5-1 Neighboring gene ribonucleic acid export 1 Neighboring gene MT-RNR2 like 3 Neighboring gene RBM38 antisense RNA 1 Neighboring gene VISTA enhancer hs1971 Neighboring gene GATA motif-containing MPRA enhancer 47

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?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association of lipid-lowering response to statins in combined study populations.
NHGRI GWA Catalog
Genome-wide association study identifies a novel locus contributing to type 2 diabetes susceptibility in Sikhs of Punjabi origin from India.
NHGRI GWA Catalog
Genome-wide association study of hematological and biochemical traits in a Japanese population.
NHGRI GWA Catalog
Seventy-five genetic loci influencing the human red blood cell.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA 3'-UTR binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
3'-UTR-mediated mRNA stabilization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA splicing IEA
Inferred from Electronic Annotation
more info
 
cell cycle IEA
Inferred from Electronic Annotation
more info
 
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
mRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of RNA metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of RNA splicing IDA
Inferred from Direct Assay
more info
PubMed 
regulation of myotube differentiation IEA
Inferred from Electronic Annotation
more info
 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
RNA-binding protein 38
Names
CLL-associated antigen KW-5
RNA-binding region (RNP1, RRM) containing 1
RNA-binding region-containing protein 1
ssDNA-binding protein SEB4

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_001291780.2NP_001278709.1  RNA-binding protein 38 isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (c).
    Source sequence(s)
    AL109955
    UniProtKB/Swiss-Prot
    Q9H0Z9
    Conserved Domains (1) summary
    cd12384
    Location:34141
    RRM_RBM24_RBM38_like; RNA recognition motif in eukaryotic RNA-binding protein RBM24, RBM38 and similar proteins
  2. NM_017495.6NP_059965.2  RNA-binding protein 38 isoform a

    See identical proteins and their annotated locations for NP_059965.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) lacks an alternate in-frame exon in the 5' coding region, compared to variant 3, resulting in an isoform (a) that is shorter than isoform c.
    Source sequence(s)
    AL109955
    Consensus CDS
    CCDS46617.1
    UniProtKB/Swiss-Prot
    Q9H0Z9
    Related
    ENSP00000348538.5, ENST00000356208.10
    Conserved Domains (1) summary
    cd12384
    Location:34109
    RRM_RBM24_RBM38_like; RNA recognition motif in eukaryotic RNA-binding protein RBM24, RBM38 and similar proteins
  3. NM_183425.3NP_906270.1  RNA-binding protein 38 isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, and also lacks another exon that results in a frameshift in the 3' coding region, compared to variant 3. The encoded isoform (b) has a distinct C-terminus and is shorter than isoform c.
    Source sequence(s)
    AL109955
    Consensus CDS
    CCDS46618.1
    UniProtKB/Swiss-Prot
    Q9H0Z9
    Related
    ENSP00000407848.2, ENST00000440234.6
    Conserved Domains (1) summary
    cd12384
    Location:34109
    RRM_RBM24_RBM38_like; RNA recognition motif in eukaryotic RNA-binding protein RBM24, RBM38 and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p13 Primary Assembly

    Range
    57391396..57409333
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005260446.4XP_005260503.1  RNA-binding protein 38 isoform X2

    Conserved Domains (1) summary
    cd12384
    Location:34141
    RRM_RBM24_RBM38_like; RNA recognition motif in eukaryotic RNA-binding protein RBM24, RBM38 and similar proteins
  2. XM_011528885.3XP_011527187.1  RNA-binding protein 38 isoform X1

    Conserved Domains (1) summary
    cd12384
    Location:34141
    RRM_RBM24_RBM38_like; RNA recognition motif in eukaryotic RNA-binding protein RBM24, RBM38 and similar proteins
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