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RBM10 RNA binding motif protein 10 [ Homo sapiens (human) ]

Gene ID: 8241, updated on 16-Apr-2024

Summary

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Official Symbol
RBM10provided by HGNC
Official Full Name
RNA binding motif protein 10provided by HGNC
Primary source
HGNC:HGNC:9896
See related
Ensembl:ENSG00000182872 MIM:300080; AllianceGenome:HGNC:9896
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
Also known as
S1-1; TARPS; GPATC9; ZRANB5; GPATCH9; DXS8237E; MINAS-60
Summary
This gene encodes a nuclear protein that belongs to a family proteins that contain an RNA-binding motif. The encoded protein associates with hnRNP proteins and may be involved in regulating alternative splicing. Defects in this gene are the cause of the X-linked recessive disorder, TARP syndrome. Alternate splicing results in multiple transcript variants.[provided by RefSeq, Mar 2011]
Expression
Ubiquitous expression in ovary (RPKM 15.6), spleen (RPKM 12.3) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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Location:
Xp11.3
Exon count:
25
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (47145221..47186813)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (46554946..46596509)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (47004620..47046212)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373193 Neighboring gene uncharacterized LOC107985720 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29580 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29581 Neighboring gene RNA, U12 small nuclear 2, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29582 Neighboring gene NADH:ubiquinone oxidoreductase subunit B11 Neighboring gene ITPK1 pseudogene 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chrX:47037923-47039122 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29583 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:47050393-47050933 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:47053068-47053256 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20798 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chrX:47057593-47058792 Neighboring gene ubiquitin like modifier activating enzyme 1 Neighboring gene uncharacterized LOC105373194 Neighboring gene inactivation escape 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20799 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29586 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29587 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:47078167-47078806 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:47087788-47088288 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:47088289-47088789 Neighboring gene cyclin dependent kinase 16

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. RBM10 recruits METTL3 to induce N6-methyladenosine-MALAT1-dependent modification, inhibiting the invasion and migration of NSCLC. Cao Y, et al. Life Sci, 2023 Feb 15. PMID 36608868
  2. Lycorine upregulates the expression of RMB10, promotes apoptosis and inhibits the proliferation and migration of cervical cancer cells. Li Z, et al. Int J Mol Med, 2022 Dec. PMID 36367172, Free PMC Article
  3. Sequestration of RBM10 in Nuclear Bodies: Targeting Sequences and Biological Significance. Wang LY, et al. Int J Mol Sci, 2021 Sep 29. PMID 34638866, Free PMC Article
  4. RBM10: Structure, functions, and associated diseases. Inoue A. Gene, 2021 May 30. PMID 33515724, Free PMC Article
  5. Phenotypic spectrum of the RBM10-mediated intellectual disability and congenital malformation syndrome beyond classic TARP syndrome features. Kumps C, et al. Clin Genet, 2021 Mar. PMID 33340101

See all (191) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. RBM10 C761Y mutation induced oncogenic ASPM isoforms and regulated beta-catenin signaling in cholangiocarcinoma.
    Title: RBM10 C761Y mutation induced oncogenic ASPM isoforms and regulated β-catenin signaling in cholangiocarcinoma.
  2. RBM10 regulates the tumorigenic potential of human cancer cells by modulating PPM1B and YBX1 activities.
    Title: RBM10 regulates the tumorigenic potential of human cancer cells by modulating PPM1B and YBX1 activities.
  3. An RBM10 and NF-kappaB interacting host lncRNA promotes JEV replication and neuronal cell death.
    Title: An RBM10 and NF-κB interacting host lncRNA promotes JEV replication and neuronal cell death.
  4. RNA-binding motif protein 10 inactivates c-Myc by partnering with ribosomal proteins uL18 and uL5.
    Title: RNA-binding motif protein 10 inactivates c-Myc by partnering with ribosomal proteins uL18 and uL5.
  5. RBM10 recruits METTL3 to induce N6-methyladenosine-MALAT1-dependent modification, inhibiting the invasion and migration of NSCLC.
    Title: RBM10 recruits METTL3 to induce N6-methyladenosine-MALAT1-dependent modification, inhibiting the invasion and migration of NSCLC.
  6. Lycorine upregulates the expression of RMB10, promotes apoptosis and inhibits the proliferation and migration of cervical cancer cells.
    Title: Lycorine upregulates the expression of RMB10, promotes apoptosis and inhibits the proliferation and migration of cervical cancer cells.
  7. Phenotypic spectrum of the RBM10-mediated intellectual disability and congenital malformation syndrome beyond classic TARP syndrome features.
    Title: Phenotypic spectrum of the RBM10-mediated intellectual disability and congenital malformation syndrome beyond classic TARP syndrome features.
  8. The role of RBM10 mutations in the development, treatment, and prognosis of lung adenocarcinoma.
    Title: The role of RBM10 mutations in the development, treatment, and prognosis of lung adenocarcinoma.
  9. Sequestration of RBM10 in Nuclear Bodies: Targeting Sequences and Biological Significance.
    Title: Sequestration of RBM10 in Nuclear Bodies: Targeting Sequences and Biological Significance.
  10. Star-PAP RNA Binding Landscape Reveals Novel Role of Star-PAP in mRNA Metabolism That Requires RBM10-RNA Association.
    Title: Star-PAP RNA Binding Landscape Reveals Novel Role of Star-PAP in mRNA Metabolism That Requires RBM10-RNA Association.
Submit: New GeneRIF Correction See all GeneRIFs (46)

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

Associated conditions

Description Tests
TARP syndrome
MedGen: C1839463 OMIM: 311900 GeneReviews: Not available
Compare labs

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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Replication interactions

Interaction Pubs
Knockdown of RNA binding motif protein 10 (RBM10) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 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

  • MGC997, MGC1132, FLJ40796, KIAA0122

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables miRNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in 3'-UTR-mediated mRNA stabilization IEA
Inferred from Electronic Annotation
more info
  
involved_in biological_process ND
No biological Data available
more info
  
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of mRNA splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of vascular associated smooth muscle cell proliferation IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of vascular associated smooth muscle cell apoptotic process IEA
Inferred from Electronic Annotation
more info
  
involved_in vascular associated smooth muscle cell apoptotic process IEA
Inferred from Electronic Annotation
more info
  
involved_in vascular associated smooth muscle cell proliferation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nuclear speck IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
part_of protein-containing complex IPI
Inferred from Physical Interaction
more info
 PubMed 

General protein information

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Preferred Names
RNA-binding protein 10
Names
G-patch domain containing 9
RNA-binding protein S1-1
epididymis secretory sperm binding protein
g patch domain-containing protein 9
zinc finger RANBP2-type containing 5

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.

Genomic

  1. NG_012548.1 RefSeqGene

    Range
    4990..46582
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001204466.2 → NP_001191395.1  RNA-binding protein 10 isoform 3

    See identical proteins and their annotated locations for NP_001191395.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AK292758, AL513366, AW248804, BX537969, DB183041
    Consensus CDS
    CCDS56600.1
    UniProtKB/TrEMBL
    Q7Z3D7
    Related
    ENSP00000329659.6, ENST00000345781.10
    Conserved Domains (6) summary
    smart00547
    Location:138 → 162
    ZnF_RBZ; Zinc finger domain
    sd00029
    Location:140 → 159
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    cd16167
    Location:487 → 550
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    pfam01585
    Location:781 → 825
    G-patch; G-patch domain
    cd12754
    Location:221 → 307
    RRM2_RBM10; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 10 (RBM10)
    cl17169
    Location:67 → 134
    RRM_SF; RNA recognition motif (RRM) superfamily

  2. NM_001204467.2 → NP_001191396.1  RNA-binding protein 10 isoform 4

    See identical proteins and their annotated locations for NP_001191396.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses and alternate splice site in the coding region, compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
    Source sequence(s)
    AL513366, AW248804, D50912, DB183041
    UniProtKB/TrEMBL
    Q7Z3D7
    Conserved Domains (7) summary
    smart00547
    Location:215 → 239
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:21 → 232
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12753
    Location:127 → 211
    RRM1_RBM10; RNA recognition motif 1 in vertebrate RNA-binding protein 10 (RBM10)
    cd12754
    Location:298 → 383
    RRM2_RBM10; RNA recognition motif 2 in vertebrate RNA-binding protein 10 (RBM10)
    sd00029
    Location:217 → 236
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    cd16167
    Location:563 → 626
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    pfam01585
    Location:857 → 899
    G-patch; G-patch domain

  3. NM_001204468.2 → NP_001191397.1  RNA-binding protein 10 isoform 5

    See identical proteins and their annotated locations for NP_001191397.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) uses an alternate splice site in the 5' coding region and initiates translation at an upstream in-frame start codon, compared to variant 1. The encoded isoform (5) has a distinct N-terminus and is longer than isoform 1.
    Source sequence(s)
    AL513366, AW248804, BX537969, DB183041
    Consensus CDS
    CCDS75969.1
    UniProtKB/TrEMBL
    Q7Z3D7
    Related
    ENSP00000328848.8, ENST00000329236.8
    Conserved Domains (8) summary
    smart00547
    Location:280 → 304
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:86 → 297
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12753
    Location:192 → 276
    RRM1_RBM10; RNA recognition motif 1 in vertebrate RNA-binding protein 10 (RBM10)
    cd12754
    Location:363 → 449
    RRM2_RBM10; RNA recognition motif 2 in vertebrate RNA-binding protein 10 (RBM10)
    TIGR01661
    Location:201 → 446
    ELAV_HUD_SF; ELAV/HuD family splicing factor
    sd00025
    Location:282 → 301
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam01585
    Location:923 → 967
    G-patch; G-patch domain
    cd16167
    Location:629 → 692
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins

  4. NM_005676.5 → NP_005667.2  RNA-binding protein 10 isoform 1

    See identical proteins and their annotated locations for NP_005667.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform (1).
    Source sequence(s)
    AW248804, BC008733, DB183041
    Consensus CDS
    CCDS14274.1
    UniProtKB/Swiss-Prot
    A0A0A0MR66, C4AM81, P98175, Q14136, Q5JRR2, Q9BTE4, Q9BTX0, Q9NTB1
    UniProtKB/TrEMBL
    A0A0S2Z4W4, Q7Z3D7
    Related
    ENSP00000366829.3, ENST00000377604.8
    Conserved Domains (7) summary
    smart00547
    Location:215 → 239
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:21 → 232
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    sd00029
    Location:217 → 236
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    cd16167
    Location:564 → 627
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    pfam01585
    Location:858 → 902
    G-patch; G-patch domain
    cd12753
    Location:128 → 211
    RRM1_RBM10; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 10 (RBM10)
    cd12754
    Location:298 → 384
    RRM2_RBM10; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 10 (RBM10)

  5. NM_152856.3 → NP_690595.1  RNA-binding protein 10 isoform 2

    See identical proteins and their annotated locations for NP_690595.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon and uses and alternate splice site in the coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    BC003089, DB183041
    Consensus CDS
    CCDS78478.1
    UniProtKB/TrEMBL
    A0A0S2Z4X1, Q7Z3D7
    Related
    ENSP00000486115.1, ENST00000628161.2
    Conserved Domains (6) summary
    smart00547
    Location:138 → 162
    ZnF_RBZ; Zinc finger domain
    sd00029
    Location:140 → 159
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    cd16167
    Location:486 → 549
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    pfam01585
    Location:780 → 824
    G-patch; G-patch domain
    cd12754
    Location:221 → 306
    RRM2_RBM10; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 10 (RBM10)
    cl17169
    Location:67 → 134
    RRM_SF; RNA recognition motif (RRM) superfamily

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_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    47145221..47186813
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005272677.5 → XP_005272734.1  RNA-binding protein 10 isoform X1

    UniProtKB/TrEMBL
    Q7Z3D7
    Conserved Domains (7) summary
    smart00547
    Location:280 → 304
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:86 → 297
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12753
    Location:192 → 276
    RRM1_RBM10; RNA recognition motif 1 in vertebrate RNA-binding protein 10 (RBM10)
    cd12754
    Location:363 → 448
    RRM2_RBM10; RNA recognition motif 2 in vertebrate RNA-binding protein 10 (RBM10)
    sd00025
    Location:282 → 301
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam01585
    Location:922 → 966
    G-patch; G-patch domain
    cd16167
    Location:628 → 691
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins

  2. XM_047442551.1 → XP_047298507.1  RNA-binding protein 10 isoform X4

  3. XM_005272678.5 → XP_005272735.1  RNA-binding protein 10 isoform X2

    UniProtKB/TrEMBL
    Q7Z3D7
    Conserved Domains (7) summary
    smart00547
    Location:203 → 227
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:276 → 381
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12754
    Location:286 → 372
    RRM2_RBM10; RNA recognition motif 2 in vertebrate RNA-binding protein 10 (RBM10)
    sd00025
    Location:205 → 224
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam01585
    Location:846 → 890
    G-patch; G-patch domain
    cd16167
    Location:552 → 615
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    cl17169
    Location:132 → 199
    RRM_SF; RNA recognition motif (RRM) superfamily

  4. XM_005272679.5 → XP_005272736.1  RNA-binding protein 10 isoform X3

    UniProtKB/TrEMBL
    Q7Z3D7
    Conserved Domains (7) summary
    smart00547
    Location:203 → 227
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:276 → 380
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12754
    Location:286 → 371
    RRM2_RBM10; RNA recognition motif 2 in vertebrate RNA-binding protein 10 (RBM10)
    sd00025
    Location:205 → 224
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam01585
    Location:845 → 889
    G-patch; G-patch domain
    cd16167
    Location:551 → 614
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    cl17169
    Location:132 → 199
    RRM_SF; RNA recognition motif (RRM) superfamily

  5. XM_047442554.1 → XP_047298510.1  RNA-binding protein 10 isoform X7

  6. XM_047442552.1 → XP_047298508.1  RNA-binding protein 10 isoform X5

  7. XM_047442555.1 → XP_047298511.1  RNA-binding protein 10 isoform X8

  8. XM_047442553.1 → XP_047298509.1  RNA-binding protein 10 isoform X6

  9. XM_047442556.1 → XP_047298512.1  RNA-binding protein 10 isoform X9

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    46554946..46596509
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054327935.1 → XP_054183910.1  RNA-binding protein 10 isoform X1

  2. XM_054327938.1 → XP_054183913.1  RNA-binding protein 10 isoform X4

  3. XM_054327936.1 → XP_054183911.1  RNA-binding protein 10 isoform X2

  4. XM_054327937.1 → XP_054183912.1  RNA-binding protein 10 isoform X3

  5. XM_054327941.1 → XP_054183916.1  RNA-binding protein 10 isoform X7

  6. XM_054327939.1 → XP_054183914.1  RNA-binding protein 10 isoform X5

  7. XM_054327942.1 → XP_054183917.1  RNA-binding protein 10 isoform X8

  8. XM_054327940.1 → XP_054183915.1  RNA-binding protein 10 isoform X6

  9. XM_054327943.1 → XP_054183918.1  RNA-binding protein 10 isoform X9

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P0DW28.1 GenPept UniProtKB/Swiss-Prot:P0DW28
P98175.3 GenPept UniProtKB/Swiss-Prot:P98175

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