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RBM34 RNA binding motif protein 34 [ Homo sapiens (human) ]

Gene ID: 23029, updated on 7-Apr-2024

Summary

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Official Symbol
RBM34provided by HGNC
Official Full Name
RNA binding motif protein 34provided by HGNC
Primary source
HGNC:HGNC:28965
See related
Ensembl:ENSG00000188739 MIM:619915; AllianceGenome:HGNC:28965
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene encodes a member of the RNA-binding motif family of RNA recognition motif proteins. The encoded protein contains an RNA-binding domain made up of two RNA recognition motif subdomains referred to as RNA recognition motif-1 and RNA recognition motif-2. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2016]
Expression
Ubiquitous expression in testis (RPKM 15.6), lymph node (RPKM 10.7) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
1q42.3
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (235131183..235161250, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (234522898..234552956, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (235294498..235324565, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2790 Neighboring gene long intergenic non-protein coding RNA 1348 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:235245875-235246397 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:235256647-235257230 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2791 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1984 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2792 Neighboring gene uncharacterized LOC105379283 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2793 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2794 Neighboring gene translocase of outer mitochondrial membrane 20 Neighboring gene small nucleolar RNA, H/ACA box 14B Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2795 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:235322928-235323532 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:235323819-235325018 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:235334884-235335090 Neighboring gene AT-rich interaction domain 4B Neighboring gene microRNA 4753 Neighboring gene Sharpr-MPRA regulatory region 13312 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:235434772-235435360 Neighboring gene ribosomal protein L23a pseudogene 23

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Functional Networks of Highest-Connected Splice Isoforms: From The Chromosome 17 Human Proteome Project. Li HD, et al. J Proteome Res, 2015 Sep 4. PMID 26216192, Free PMC Article
  2. Microarray analysis of differentially expressed genes in cells resistant to HIV-1. Kartvelishvili A, et al. Immunol Lett, 2004 Apr 30. PMID 15134903
  3. Prediction of the coding sequences of unidentified human genes. III. The coding sequences of 40 new genes (KIAA0081-KIAA0120) deduced by analysis of cDNA clones from human cell line KG-1. Nagase T, et al. DNA Res, 1995. PMID 7788527
  4. Agonist-specific Protein Interactomes of Glucocorticoid and Androgen Receptor as Revealed by Proximity Mapping. Lempiäinen JK, et al. Mol Cell Proteomics, 2017 Aug. PMID 28611094, Free PMC Article
  5. Expanding the substantial interactome of NEMO using protein microarrays. Fenner BJ, et al. PLoS One, 2010 Jan 20. PMID 20098747, Free PMC Article

See all (90) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Vif vif HIV-1 Vif downregulates the expression of RNA binding motif protein 34 (RBM34) in Vif-expression T cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • KIAA0117

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables rRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in chromosome IDA
Inferred from Direct Assay
more info
  
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleolus IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
RNA-binding protein 34
Names
epididymis secretory sperm binding protein

NCBI Reference Sequences (RefSeq)

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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_001346738.2 → NP_001333667.1  RNA-binding protein 34 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1
    Source sequence(s)
    AK292362, AL133418, AL732292, BM995796, DB045266
    UniProtKB/TrEMBL
    A0A384NL74

  2. NM_015014.4 → NP_055829.2  RNA-binding protein 34 isoform 1

    See identical proteins and their annotated locations for NP_055829.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    BC029451, BM995796
    Consensus CDS
    CCDS41477.2
    UniProtKB/Swiss-Prot
    A8K8J7, P42696, Q8N2Z8, Q9H5A1
    UniProtKB/TrEMBL
    A0A384NL74
    Related
    ENSP00000386226.3, ENST00000408888.8
    Conserved Domains (3) summary
    COG0724
    Location:176 → 382
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12394
    Location:185 → 276
    RRM1_RBM34; RNA recognition motif 1 in RNA-binding protein 34 (RBM34) and similar proteins
    cd12395
    Location:288 → 360
    RRM2_RBM34; RNA recognition motif 2 in RNA-binding protein 34 (RBM34) and similar proteins

RNA

  1. NR_027762.3 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL133418, AL732292, BM995796

  2. NR_144490.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) retains an intron in the 5' region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK292362, AL133418, AL732292, BM995796, DB045266

  3. NR_144491.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks an internal exon and uses an alternate splice site, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK292362, AL133418, AL732292, BM995796, DB045266

  4. NR_144492.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) retains an intron in the 5' region and lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK292362, AL133418, AL732292, BM995796, DB045266

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    235131183..235161250 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047449700.1 → XP_047305656.1  RNA-binding protein 34 isoform X2

  2. XM_011544133.3 → XP_011542435.1  RNA-binding protein 34 isoform X1

    UniProtKB/TrEMBL
    A2A2V2
    Related
    ENSP00000400000.1, ENST00000447801.5
    Conserved Domains (3) summary
    COG0724
    Location:258 → 362
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12395
    Location:268 → 340
    RRM2_RBM34; RNA recognition motif 2 in RNA-binding protein 34 (RBM34) and similar proteins
    cl17169
    Location:185 → 256
    RRM_SF; RNA recognition motif (RRM) superfamily

  3. XM_047449705.1 → XP_047305661.1  RNA-binding protein 34 isoform X3

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    234522898..234552956 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054335257.1 → XP_054191232.1  RNA-binding protein 34 isoform X2

  2. XM_054335256.1 → XP_054191231.1  RNA-binding protein 34 isoform X1

  3. XM_054335258.1 → XP_054191233.1  RNA-binding protein 34 isoform X3

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001161533.1: Suppressed sequence

    Description
    NM_001161533.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P42696.2 GenPept UniProtKB/Swiss-Prot:P42696

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