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Aliases for RBM7 Gene
Aliases for RBM7 Gene
External Ids for RBM7 Gene
- HGNC: 9904
- Entrez Gene: 10179
- Ensembl: ENSG00000076053
- OMIM: 612413
- UniProtKB: Q9Y580
Previous GeneCards Identifiers for RBM7 Gene
- GC11P116624
- GC11P115783
- GC11P114305
- GC11P113808
- GC11P113776
- GC11P110199
- GC11P114270
Summaries for RBM7 Gene
GeneCards Summary for RBM7 Gene
RBM7 (RNA Binding Motif Protein 7) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is ENSG00000255663.
UniProtKB/Swiss-Prot Summary for RBM7 Gene
-
RNA-binding subunit of the trimeric nuclear exosome targeting (NEXT) complex, a complex that functions as an RNA exosome cofactor that directs a subset of non-coding short-lived RNAs for exosomal degradation (PubMed:25189701, PubMed:25578728, PubMed:25525152, PubMed:25852104, PubMed:27871484). NEXT is involved in surveillance and turnover of aberrant transcripts and non-coding RNAs (PubMed:25189701, PubMed:27871484, PubMed:25852104). Binds preferentially polyuridine sequences and associates with newly synthesized RNAs, including pre-mRNAs and short-lived exosome substrates such as promoter upstream transcripts (PROMPTs), enhancer RNAs (eRNAs), and 3'-extended products from small nuclear RNAs (snRNAs) (PubMed:25189701, PubMed:25578728, PubMed:25525152, PubMed:25852104). Participates in several biological processes including DNA damage response (DDR) and stress response (PubMed:25525152, PubMed:30824372). During stress response, activation of the p38MAPK-MK2 pathway decreases RBM7-RNA-binding and subsequently the RNA exosome degradation activities, thereby modulating the turnover of non-coding transcriptome (PubMed:25525152). Participates in DNA damage response (DDR), through its interaction with MEPCE and LARP7, the core subunits of 7SK snRNP complex, that release the positive transcription elongation factor b (P-TEFb) complex from the 7SK snRNP. In turn, activation of P-TEFb complex induces the transcription of P-TEFb-dependent DDR genes to promote cell viability (PubMed:30824372).
Additional gene information for RBM7 Gene
- HGNC(9904)
- Entrez Gene(10179)
- Ensembl(ENSG00000076053)
- OMIM(612413)
- UniProtKB(Q9Y580)
- Open Targets Platform(ENSG00000076053)
- Monarch Initiative
- Search for RBM7 at DataMed
- Search for RBM7 at HumanCyc
No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RBM7 Gene
Genomics for RBM7 Gene
GeneHancer (GH) Regulatory Elements Pubs
Promoters and enhancers for RBM7 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association
Download GeneHancer data from 2017 publication |
Request up-to-date GeneHancer data (full dataset)
GeneHancers around RBM7 on the GeneHancer Hub at the UCSC Golden Path
Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for RBM7
- Top Transcription factor binding sites by QIAGEN in the RBM7 gene promoter:
-
- aMEF-2
- ATF-2
- c-Jun
- CUTL1
- GATA-1
- GCNF
- GCNF-1
- MEF-2A
- POU2F1
- POU2F1a
Genomic Locations for RBM7 Gene
Genomic Locations for RBM7 Gene
- chr11:114,400,030-114,414,203
- (GRCh38/hg38)
- Size:
- 14,174 bases
- Orientation:
- Plus strand
- chr11:114,270,752-114,284,925
- (GRCh37/hg19)
- Size:
- 14,174 bases
- Orientation:
- Plus strand
Genomic View for RBM7 Gene
Genes around RBM7 on UCSC Golden Path with GeneCards custom track
- Cytogenetic band:
-
- 11q23.1-q23.2 by HGNC
- 11q23.2 by Entrez Gene
- 11q23.2 by Ensembl
RBM7 Gene in genomic location: bands according to
Ensembl, locations according to GeneLoc
(and/or Entrez Gene and/or Ensembl if different)
Genomic Neighborhood
• Exon Structure
• Gene Density
RefSeq DNA sequence for RBM7 Gene
Proteins for RBM7 Gene
-
Protein details for RBM7 Gene (UniProtKB/Swiss-Prot)
- Protein Symbol:
- Q9Y580-RBM7_HUMAN
- Recommended name:
- RNA-binding protein 7
- Protein Accession:
- Q9Y580
- B2R6K8
- Q9NUT4
Protein attributes for RBM7 Gene
- Size:
- 266 amino acids
- Molecular mass:
- 30504 Da
- Quaternary structure:
-
- Component of the nuclear exosome targeting (NEXT) complex composed of MTREX, ZCCHC8, and RBM7 that directs a subset of non-coding short-lived RNAs for exosomal degradation (PubMed:27905398, PubMed:27871484, PubMed:25189701). Interacts with ZCCHC8 and SF3B2/SAP145 (PubMed:27905398, PubMed:27871484, PubMed:16263084). Binds to MTREX through ZCCHC8 (PubMed:27871484). Interacts with YWHAE and YWHAZ; these interactions are stress-dependent and RBM7 phosphorylation dependent; release RNA from the NEXT complex and may affect RNA targeting to the nuclear RNA exosomome for degradation (PubMed:25189701). Interacts with MEPCE and LARP7, the core subunits of 7SK snRNP; upon genotoxic stress this interaction is enhanced, triggering the release of inactive P-TEFb complex from the core and P-TEFb complex activation (PubMed:30824372).
Protein Expression for RBM7 Gene
Post-translational modifications for RBM7 Gene
- Phosphorylated at Ser-136 by MAPK14/p38-alpha-activated MAPKAPK2/MK2; this phosphorylation is stress-dependent; this phosphorylation decreases its RNA-binding capacity therefore affecting RNA nuclear exosome-mediated degradation (PubMed:25525152, PubMed:25189701). This phosphorylation mediates YWHAE and YWHAZ interactions (PubMed:25189701).
- Modification sites at PhosphoSitePlus
- Modification sites at neXtProt
Other Protein References for RBM7 Gene
- ENSEMBL proteins:
- REFSEQ proteins:
Antibody Products
-
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-
Abcam antibodies for RBM7
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-
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- Sino Biological Antibodies for RBM7
Protein Products
-
OriGene Purified Proteins for RBM7
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- antibodies-online: Show 4 available RBM7 Proteins ranked by validation data
- Compare Top RBM7 Proteins
-
Quality Products:
-
Abcam proteins for RBM7
No data available for DME Specific Peptides for RBM7 Gene
Domains & Families for RBM7 Gene
Gene Families for RBM7 Gene
- HGNC:
- Human Protein Atlas (HPA):
-
- Predicted intracellular proteins
Protein Domains for RBM7 Gene
- InterPro:
- Blocks:
-
- RNA-binding region RNP-1 (RNA recognition motif)
- ProtoNet:
Suggested Antigen Peptide Sequences for RBM7 Gene
- GenScript: Design optimal peptide antigens:
-
- RNA binding motif protein 7 (Q6IRX3_HUMAN)
- RNA-binding motif protein 7 (RBM7_HUMAN)
Graphical View of Domain Structure for InterPro Entry
Q9Y580UniProtKB/Swiss-Prot:
RBM7_HUMAN :- The RRM domain mediates RNA binding; the RNA must have four nucleotides for efficient binding (PubMed:25852104). Mediates the interaction of NEXT complex with promoter upstream transcripts (PROMPTs) and potentially aberrant forms of other non coding RNAs, such as snRNAs (PubMed:25852104). The RRM domain exhibits specificity for polyuridine sequences (PubMed:25852104).
- Domain:
-
- The RRM domain mediates RNA binding; the RNA must have four nucleotides for efficient binding (PubMed:25852104). Mediates the interaction of NEXT complex with promoter upstream transcripts (PROMPTs) and potentially aberrant forms of other non coding RNAs, such as snRNAs (PubMed:25852104). The RRM domain exhibits specificity for polyuridine sequences (PubMed:25852104).
Function for RBM7 Gene
Molecular function for RBM7 Gene
- UniProtKB/Swiss-Prot Function:
- RNA-binding subunit of the trimeric nuclear exosome targeting (NEXT) complex, a complex that functions as an RNA exosome cofactor that directs a subset of non-coding short-lived RNAs for exosomal degradation (PubMed:25189701, PubMed:25578728, PubMed:25525152, PubMed:25852104, PubMed:27871484). NEXT is involved in surveillance and turnover of aberrant transcripts and non-coding RNAs (PubMed:25189701, PubMed:27871484, PubMed:25852104). Binds preferentially polyuridine sequences and associates with newly synthesized RNAs, including pre-mRNAs and short-lived exosome substrates such as promoter upstream transcripts (PROMPTs), enhancer RNAs (eRNAs), and 3'-extended products from small nuclear RNAs (snRNAs) (PubMed:25189701, PubMed:25578728, PubMed:25525152, PubMed:25852104). Participates in several biological processes including DNA damage response (DDR) and stress response (PubMed:25525152, PubMed:30824372). During stress response, activation of the p38MAPK-MK2 pathway decreases RBM7-RNA-binding and subsequently the RNA exosome degradation activities, thereby modulating the turnover of non-coding transcriptome (PubMed:25525152). Participates in DNA damage response (DDR), through its interaction with MEPCE and LARP7, the core subunits of 7SK snRNP complex, that release the positive transcription elongation factor b (P-TEFb) complex from the 7SK snRNP. In turn, activation of P-TEFb complex induces the transcription of P-TEFb-dependent DDR genes to promote cell viability (PubMed:30824372).
Phenotypes From GWAS Catalog for RBM7 Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0003676 | nucleic acid binding | IEA | -- |
| GO:0003723 | RNA binding | IEA,IMP | 25189701 |
| GO:0003727 | single-stranded RNA binding | IBA | 21873635 |
| GO:0005515 | protein binding | IPI | 16263084 |
| GO:0017069 | snRNA binding | IDA | 25852104 |
Phenotypes for RBM7 Gene
Animal Model Products
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CRISPR Products
- Applied Biological Materials (abm): CRISPR Clones for RBM7 - Select products 50% OFF >
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miRNA for RBM7 Gene
- miRTarBase miRNAs that target RBM7
-
- hsa-miR-149-5p (MIRT045565)
- hsa-miR-578 (MIRT444170)
- hsa-miR-526b-5p (MIRT444171)
- hsa-miR-4764-5p (MIRT444172)
- hsa-miR-4714-3p (MIRT444173)
- hsa-miR-4307 (MIRT444174)
- hsa-miR-619-3p (MIRT444175)
- hsa-miR-490-3p (MIRT444177)
- hsa-miR-4503 (MIRT546790)
- hsa-miR-190a-3p (MIRT546791)
- hsa-miR-3144-3p (MIRT546792)
- hsa-miR-6792-5p (MIRT546793)
- hsa-miR-3653-3p (MIRT546794)
- hsa-miR-4670-3p (MIRT546795)
- hsa-miR-5009-3p (MIRT546796)
- hsa-miR-410-3p (MIRT546797)
- hsa-miR-875-5p (MIRT546798)
- hsa-miR-3908 (MIRT546799)
miRNA Products
Inhibitory RNA Products
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Clone Products
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- Sino Biological Human cDNA Clone for RBM7
- Search GeneCopoeia for ORF cDNA, lentivirus, AAV viral particles and/or promoter clone products for RBM7
Cell Line Products
-
Horizon Cell Lines for RBM7
No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RBM7 Gene
Localization for RBM7 Gene
Subcellular locations from UniProtKB/Swiss-Prot for RBM7 Gene
- Nucleus, nucleoplasm. Nucleus. Note=Excluded from the nucleolus. {ECO:0000269 PubMed:21855801}.
| Compartment | Confidence |
|---|---|
| nucleus | 5 |
| extracellular | 2 |
| cytoskeleton | 1 |
| cytosol | 1 |
- Nucleoplasm (4)
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0005634 | nucleus | IBA,IDA | 21855801 |
| GO:0005654 | nucleoplasm | IDA | 16263084 |
| GO:0005730 | NOT nucleolus | IDA | 21855801 |
Pathways & Interactions for RBM7 Gene
Interacting Proteins for RBM7 Gene
Selected Interacting proteins:
Q9Y580-RBM7_HUMAN
ENSP00000364639
for RBM7 Gene via
UniProtKB
MINT
STRING
IID
GPS-Prot Interaction Network for RBM7
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0000381 | regulation of alternative mRNA splicing, via spliceosome | IBA | 21873635 |
| GO:0016076 | snRNA catabolic process | IMP | 25852104 |
| GO:0051321 | meiotic cell cycle | IEA | -- |
No data available for Pathways by source and SIGNOR curated interactions for RBM7 Gene
Transcripts for RBM7 Gene
mRNA/cDNA for RBM7 Gene
- 5 REFSEQ mRNAs :
- 12 NCBI additional mRNA sequence :
- 9 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
-
- ENST00000375490 2064 nts (view in UCSC)
- ENST00000538134 566 nts (view in UCSC)
- ENST00000540163 4243 nts (view in UCSC)
- ENST00000541475 6725 nts (view in UCSC)
- ENST00000542140 1908 nts (view in UCSC)
CRISPR Products
- Applied Biological Materials (abm): CRISPR Clones for RBM7 - Select products 50% OFF >
- * RBM7 CRISPR as ready-to-use vector or virus: ORF | Lenti- | Adeno- | AAV- | Protein Vector - Browse All
- * Gene synthesis, site-directed mutagenesis, subcloning, and more services - Browse All
-
OriGene CRISPR knockouts for RBM7
- Search GeneCopoeia for CRISPR/Cas9 clones, lentivirus and AAV products for RBM7
-
Santa Cruz Biotechnology (SCBT) CRISPR for RBM7
miRNA Products
Inhibitory RNA Products
- Origene shrna, sirna, and RNAi products in human, mouse, rat for RBM7
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Clone Products
- Applied Biological Materials (abm): Clones for RBM7 - Select products 50% OFF >
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- Sino Biological Human cDNA Clone for RBM7
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| ExUns: | 1a | · | 1b | · | 1c | · | 1d | ^ | 2a | · | 2b | · | 2c | ^ | 3 | ^ | 4a | · | 4b | ^ | 5 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SP1: | - | ||||||||||||||||||||
| SP2: | - | ||||||||||||||||||||
| SP3: | - | ||||||||||||||||||||
| SP4: | - | ||||||||||||||||||||
| SP5: |
Relevant External Links for RBM7 Gene
- GeneLoc Exon Structure for
- RBM7
Expression for RBM7 Gene
mRNA expression in embryonic tissues and stem cells from LifeMap Discovery
This gene is overexpressed in Lung (39.4) and Peripheral blood mononuclear cells (8.1).
Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RBM7 Gene
- Elite partner
Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RBM7
SOURCE GeneReport for Unigene cluster for RBM7 Gene:
Hs.7527mRNA Expression by UniProt/SwissProt for RBM7 Gene:
Q9Y580-RBM7_HUMAN
Tissue specificity:
Ubiquitous.
Evidence on tissue expression from TISSUES for RBM7 Gene
- Nervous system(4.6)
- Lung(4.3)
- Liver(4.2)
Primer Products
-
OriGene qPCR primer pairs for RBM7
-
OriGene qPCR primer pairs and template standards for RBM7
Gene Expression Assay Products
No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for RBM7 Gene
Orthologs for RBM7 Gene
This gene was present in the common ancestor of animals.
| Organism | Taxonomy | Gene | Similarity | Type | Details |
|---|---|---|---|---|---|
| Chimpanzee (Pan troglodytes) |
Mammalia | RBM7 30 31 |
|
OneToMany | |
| Cow (Bos Taurus) |
Mammalia | RBM7 30 31 |
|
OneToMany | |
| Dog (Canis familiaris) |
Mammalia | -- 31 |
|
OneToMany | |
| RBM7 30 |
|
||||
| Mouse (Mus musculus) |
Mammalia | Rbm7 30 17 31 |
|
OneToMany | |
| Rat (Rattus norvegicus) |
Mammalia | Rbm7 30 |
|
||
| Oppossum (Monodelphis domestica) |
Mammalia | -- 31 |
|
OneToMany | |
| Platypus (Ornithorhynchus anatinus) |
Mammalia | -- 31 |
|
OneToMany | |
| Chicken (Gallus gallus) |
Aves | RBM7 30 31 |
|
OneToMany | |
| Lizard (Anolis carolinensis) |
Reptilia | -- 31 |
|
OneToMany | |
| Tropical Clawed Frog (Silurana tropicalis) |
Amphibia | LOC101735152 30 |
|
||
| Str.10735 30 |
|
||||
| African clawed frog (Xenopus laevis) |
Amphibia | rbm7-prov 30 |
|
||
| Zebrafish (Danio rerio) |
Actinopterygii | zgc:77304 30 |
|
||
| RBM7 31 |
|
OneToMany | |||
| wufa03f03 30 |
|
||||
| Fruit Fly (Drosophila melanogaster) |
Insecta | CG11454 31 |
|
OneToMany | |
| Worm (Caenorhabditis elegans) |
Secernentea | Y37D8A.21 31 |
|
OneToMany |
- Species where no ortholog for RBM7 was found in the sources mined by GeneCards:
-
- A. gosspyii yeast (Eremothecium gossypii)
- Actinobacteria (Mycobacterium tuberculosis)
- African malaria mosquito (Anopheles gambiae)
- Alicante grape (Vitis vinifera)
- Alpha proteobacteria (Wolbachia pipientis)
- Amoeba (Dictyostelium discoideum)
- Archea (Pyrococcus horikoshii)
- Baker's yeast (Saccharomyces cerevisiae)
- Barley (Hordeum vulgare)
- Beta proteobacteria (Neisseria meningitidis)
- Bread mold (Neurospora crassa)
- Chromalveolata (Phytophthora infestans)
- Common water flea (Daphnia pulex)
- Corn (Zea mays)
- E. coli (Escherichia coli)
- Filamentous fungi (Aspergillus nidulans)
- Firmicute Bacteria (Streptococcus pneumoniae)
- Fission Yeast (Schizosaccharomyces pombe)
- Green Algae (Chlamydomonas reinhardtii)
- Honey Bee (Apis mellifera)
- K. Lactis Yeast (Kluyveromyces lactis)
- Loblloly Pine (Pinus taeda)
- Malaria Parasite (Plasmodium falciparum)
- Medicago Trunc (Medicago Truncatula)
- Moss (Physcomitrella patens)
- Orangutan (Pongo pygmaeus)
- Pig (Sus scrofa)
- Rainbow Trout (Oncorhynchus mykiss)
- Rice (Oryza sativa)
- Rice Blast Fungus (Magnaporthe grisea)
- Schistosome Parasite (Schistosoma mansoni)
- Sea Anemone (Nematostella vectensis)
- Sea Vase (Ciona intestinalis)
- Sea Squirt (Ciona savignyi)
- Sea Urchin (Strongylocentrotus purpuratus)
- Sorghum (Sorghum bicolor)
- Soybean (Glycine max)
- Stem Rust Fungus (Puccinia graminis)
- Sugarcane (Saccharum officinarum)
- Thale Cress (Arabidopsis thaliana)
- Tomato (Lycopersicon esculentum)
- Toxoplasmosis (Toxoplasma gondii)
- Trichoplax (Trichoplax adhaerens)
- Wheat (Triticum aestivum)
Evolution for RBM7 Gene
- ENSEMBL:
- Gene Tree for RBM7 (if available)
- TreeFam:
- Gene Tree for RBM7 (if available)
- Aminode:
- Evolutionary constrained regions (ECRs) for RBM7: view image
Paralogs for RBM7 Gene
Paralogs for RBM7 Gene
(6) SIMAP similar genes for RBM7 Gene using alignment to 8 proteins:
- RBM7_HUMAN
- F5GXV8_HUMAN
- F5GY08_HUMAN
- F5H606_HUMAN
- F5H674_HUMAN
- G3V1T9_HUMAN
- J3KPD3_HUMAN
- Q6IRX3_HUMAN
Pseudogenes.org Pseudogenes for RBM7 Gene
Variants for RBM7 Gene
Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for RBM7 Gene
| SNP ID | Clinical significance and condition | Chr 11 pos | Variation | AA Info | Type |
|---|---|---|---|---|---|
| 871214 | Uncertain Significance: not provided | 114,407,683(+) | A/G | MISSENSE_VARIANT | |
| VAR_082580 | - | p.Pro79Arg |
Residual Variation Intolerance Score:
29% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score:
0.48;
10.42% of all genes are more intolerant (likely to be disease-causing)
Additional Variant Information for RBM7 Gene
SNP Genotyping and Copy Number Assay Products
No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RBM7 Gene
Disorders for RBM7 Gene
Additional Disease Information for RBM7
No disorders were found for RBM7 Gene.
No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RBM7 Gene
Publications for RBM7 Gene
- RBM7 subunit of the NEXT complex binds U-rich sequences and targets 3'-end extended forms of snRNAs. (PMID: 25852104) Hrossova D … Vanacova S (Nucleic acids research 2015) 2 3 4
- P-TEFb Activation by RBM7 Shapes a Pro-survival Transcriptional Response to Genotoxic Stress. (PMID: 30824372) Bugai A … Barborič M (Molecular cell 2019) 3 4
- Identification of a Nuclear Exosome Decay Pathway for Processed Transcripts. (PMID: 27871484) Meola N … Jensen TH (Molecular cell 2016) 3 4
- Structure of the RBM7-ZCCHC8 core of the NEXT complex reveals connections to splicing factors. (PMID: 27905398) Falk S … Conti E (Nature communications 2016) 3 4
- Altered RNA metabolism due to a homozygous RBM7 mutation in a patient with spinal motor neuropathy. (PMID: 27193168) Giunta M … Horvath R (Human molecular genetics 2016) 3 4
ExternalLinks
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- antibodies-online: Show 10 available RBM7 Antibodies ranked by validation data
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- Biorbyt antibodies for RBM7
Sources for RBM7 Gene
- (1) GeneCards
- (2) HGNC
- (3) NCBI Entrez Gene
- (4) UniProtKB/Swiss-Prot
- (5) Ensembl
- (6) OMIM
- (7) GeneLoc
- (8) Gene Wiki
- (9) UCSC
- (10) PhosphoSitePlus
- (11) Cell Signaling Technology
- (12) GO
- (13) UniProtKB/TrEMBL
- (14) InterPro
- (15) ProtoNet
- (16) Blocks
- (17) MGI
- (18) IUBMB
- (19) KEGG
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