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

Gene ID: 8241, updated on 10-Dec-2024

Summary

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
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Genomic context

See RBM10 in Genome Data Viewer
Location:
Xp11.3
Exon count:
25
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (47145221..47186813)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (46554946..46596509)
RS_2024_09 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

Expression

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
TARP syndrome
MedGen: C1839463 OMIM: 311900 GeneReviews: Not available
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HIV-1 interactions

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

General gene information

Clone Names

  • MGC997, MGC1132, FLJ40796, KIAA0122

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding PubMed 
enables RNA binding  
enables identical protein binding PubMed 
enables metal ion binding  
enables miRNA binding PubMed 
enables protein binding PubMed 
Component Evidence Code Pubs
located_in nuclear speck  
is_active_in nucleolus PubMed 
located_in nucleoplasm  
is_active_in nucleus  
located_in nucleus PubMed 
part_of protein-containing complex PubMed 

General protein information

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_001204466.2NP_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:138162
    ZnF_RBZ; Zinc finger domain
    sd00029
    Location:140159
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    cd16167
    Location:487550
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    pfam01585
    Location:781825
    G-patch; G-patch domain
    cd12754
    Location:221307
    RRM2_RBM10; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 10 (RBM10)
    cl17169
    Location:67134
    RRM_SF; RNA recognition motif (RRM) superfamily
  2. NM_001204467.2NP_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:215239
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:21232
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12753
    Location:127211
    RRM1_RBM10; RNA recognition motif 1 in vertebrate RNA-binding protein 10 (RBM10)
    cd12754
    Location:298383
    RRM2_RBM10; RNA recognition motif 2 in vertebrate RNA-binding protein 10 (RBM10)
    sd00029
    Location:217236
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    cd16167
    Location:563626
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    pfam01585
    Location:857899
    G-patch; G-patch domain
  3. NM_001204468.2NP_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:280304
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:86297
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12753
    Location:192276
    RRM1_RBM10; RNA recognition motif 1 in vertebrate RNA-binding protein 10 (RBM10)
    cd12754
    Location:363449
    RRM2_RBM10; RNA recognition motif 2 in vertebrate RNA-binding protein 10 (RBM10)
    TIGR01661
    Location:201446
    ELAV_HUD_SF; ELAV/HuD family splicing factor
    sd00025
    Location:282301
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam01585
    Location:923967
    G-patch; G-patch domain
    cd16167
    Location:629692
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
  4. NM_005676.5NP_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:215239
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:21232
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    sd00029
    Location:217236
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    cd16167
    Location:564627
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    pfam01585
    Location:858902
    G-patch; G-patch domain
    cd12753
    Location:128211
    RRM1_RBM10; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 10 (RBM10)
    cd12754
    Location:298384
    RRM2_RBM10; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 10 (RBM10)
  5. NM_152856.3NP_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:138162
    ZnF_RBZ; Zinc finger domain
    sd00029
    Location:140159
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    cd16167
    Location:486549
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    pfam01585
    Location:780824
    G-patch; G-patch domain
    cd12754
    Location:221306
    RRM2_RBM10; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 10 (RBM10)
    cl17169
    Location:67134
    RRM_SF; RNA recognition motif (RRM) superfamily

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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_005272677.5XP_005272734.1  RNA-binding protein 10 isoform X1

    UniProtKB/TrEMBL
    Q7Z3D7
    Conserved Domains (7) summary
    smart00547
    Location:280304
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:86297
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12753
    Location:192276
    RRM1_RBM10; RNA recognition motif 1 in vertebrate RNA-binding protein 10 (RBM10)
    cd12754
    Location:363448
    RRM2_RBM10; RNA recognition motif 2 in vertebrate RNA-binding protein 10 (RBM10)
    sd00025
    Location:282301
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam01585
    Location:922966
    G-patch; G-patch domain
    cd16167
    Location:628691
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
  2. XM_047442551.1XP_047298507.1  RNA-binding protein 10 isoform X4

    UniProtKB/TrEMBL
    Q7Z3D7
  3. XM_005272678.5XP_005272735.1  RNA-binding protein 10 isoform X2

    UniProtKB/TrEMBL
    Q7Z3D7
    Conserved Domains (7) summary
    smart00547
    Location:203227
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:276381
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12754
    Location:286372
    RRM2_RBM10; RNA recognition motif 2 in vertebrate RNA-binding protein 10 (RBM10)
    sd00025
    Location:205224
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam01585
    Location:846890
    G-patch; G-patch domain
    cd16167
    Location:552615
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    cl17169
    Location:132199
    RRM_SF; RNA recognition motif (RRM) superfamily
  4. XM_005272679.5XP_005272736.1  RNA-binding protein 10 isoform X3

    UniProtKB/TrEMBL
    Q7Z3D7
    Conserved Domains (7) summary
    smart00547
    Location:203227
    ZnF_RBZ; Zinc finger domain
    COG0724
    Location:276380
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12754
    Location:286371
    RRM2_RBM10; RNA recognition motif 2 in vertebrate RNA-binding protein 10 (RBM10)
    sd00025
    Location:205224
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam01585
    Location:845889
    G-patch; G-patch domain
    cd16167
    Location:551614
    OCRE_RBM10; OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins
    cl17169
    Location:132199
    RRM_SF; RNA recognition motif (RRM) superfamily
  5. XM_047442554.1XP_047298510.1  RNA-binding protein 10 isoform X7

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

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

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

  9. XM_047442556.1XP_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_054327935.1XP_054183910.1  RNA-binding protein 10 isoform X1

    UniProtKB/TrEMBL
    Q7Z3D7
  2. XM_054327938.1XP_054183913.1  RNA-binding protein 10 isoform X4

    UniProtKB/TrEMBL
    Q7Z3D7
  3. XM_054327936.1XP_054183911.1  RNA-binding protein 10 isoform X2

    UniProtKB/TrEMBL
    Q7Z3D7
  4. XM_054327937.1XP_054183912.1  RNA-binding protein 10 isoform X3

    UniProtKB/TrEMBL
    Q7Z3D7
  5. XM_054327941.1XP_054183916.1  RNA-binding protein 10 isoform X7

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

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

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

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

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