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Aliases for SRRM1 Gene

Aliases for SRRM1 Gene

  • Serine And Arginine Repetitive Matrix 1 2 3 5
  • Ser/Arg-Related Nuclear Matrix Protein 2 3 4
  • SR-Related Nuclear Matrix Protein Of 160 KDa 3 4
  • Serine/Arginine Repetitive Matrix 1 2 3
  • SRM160 3 4
  • Serine/Arginine Repetitive Matrix Protein 1 3
  • Plenty Of Prolines 101-Like 2
  • 160-KD 3
  • POP101 3

External Ids for SRRM1 Gene

Previous GeneCards Identifiers for SRRM1 Gene

  • GC01P024494
  • GC01P024039
  • GC01P9A0058
  • GC01P9A4320
  • GC01P9A4714
  • GC01P024714
  • GC01P024842
  • GC01P024958
  • GC01P023226

Summaries for SRRM1 Gene

GeneCards Summary for SRRM1 Gene

SRRM1 (Serine And Arginine Repetitive Matrix 1) is a Protein Coding gene. Among its related pathways are mRNA Splicing - Major Pathway and RNA Polymerase II Transcription Termination.

UniProtKB/Swiss-Prot for SRRM1 Gene

  • Part of pre- and post-splicing multiprotein mRNP complexes. Involved in numerous pre-mRNA processing events. Promotes constitutive and exonic splicing enhancer (ESE)-dependent splicing activation by bridging together sequence-specific (SR family proteins, SFRS4, SFRS5 and TRA2B/SFRS10) and basal snRNP (SNRP70 and SNRPA1) factors of the spliceosome. Stimulates mRNA 3-end cleavage independently of the formation of an exon junction complex. Binds both pre-mRNA and spliced mRNA 20-25 nt upstream of exon-exon junctions. Binds RNA and DNA with low sequence specificity and has similar preference for either double- or single-stranded nucleic acid substrates.

Gene Wiki entry for SRRM1 Gene

Additional gene information for SRRM1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SRRM1 Gene

Genomics for SRRM1 Gene

GeneHancer (GH) Regulatory Elements for SRRM1 Gene

Promoters and enhancers for SRRM1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01I024641 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE 573 +11.7 11688 4.1 CLOCK MLX DMAP1 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC SSRP1 SRRM1 SRSF10 ENSG00000261349 ELOA NCMAP SYF2 RPL11 PNRC2 FUCA1 MAN1C1
GH01I023691 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 64.5 -939.1 -939093 3.1 HDGF FOXA2 SMAD1 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 IRF4 RPL11 SRSF10 SRRM1 LINC01355 PNRC2 HNRNPR KDM1A ELOA ASAP3 GC01M023708
GH01I023975 Promoter/Enhancer 2.9 UCNEbase EPDnew Ensembl ENCODE dbSUPER 40.1 -652.9 -652879 6.4 CLOCK MLX DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 NFYC SRSF10 ELOA SRRM1 LINC01355 KDM1A RPL11 ZNF436-AS1 PNRC2 CNR2 RUNX3
GH01I025030 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 66 +401.8 401842 6.2 HDGF PKNOX1 SMAD1 FEZF1 YBX1 GLI4 IRF4 ZNF207 ATF7 RUNX3 SRRM1 MAN1C1 RUNX3 SYF2 LOC105376878 ENSG00000261349 STMN1 RSRP1 SDHDP6 LOC105376879
GH01I025246 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 37.8 +615.3 615338 3.4 MLX DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 NFYC RSRP1 ENSG00000272432 SRRM1 ENSG00000261349 SYF2 ZNF593 STPG1 MAN1C1 PAQR7 ENSG00000284657
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SRRM1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SRRM1 gene promoter:

Genomic Locations for SRRM1 Gene

Genomic Locations for SRRM1 Gene
chr1:24,631,716-24,673,281
(GRCh38/hg38)
Size:
41,566 bases
Orientation:
Plus strand
chr1:24,958,207-24,999,772
(GRCh37/hg19)

Genomic View for SRRM1 Gene

Genes around SRRM1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SRRM1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SRRM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SRRM1 Gene

Proteins for SRRM1 Gene

  • Protein details for SRRM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IYB3-SRRM1_HUMAN
    Recommended name:
    Serine/arginine repetitive matrix protein 1
    Protein Accession:
    Q8IYB3
    Secondary Accessions:
    • O60585
    • Q5VVN4

    Protein attributes for SRRM1 Gene

    Size:
    904 amino acids
    Molecular mass:
    102335 Da
    Quaternary structure:
    • Identified in the spliceosome C complex. Found in a pre-mRNA splicing complex with SFRS4, SFRS5, SNRP70, SNRPA1, SRRM1 and SRRM2. Found in a pre-mRNA exonic splicing enhancer (ESE) complex with SNRP70, SNRPA1, SRRM1 and TRA2B/SFRS10. Found in a mRNA splicing-dependent exon junction complex (EJC) with DEK, PRPF8, NCBP1, RBM8A, RNPS1, SRRM1 and ALYREF/THOC4. Interacts with BAT1, CPSF1, RBM8A, RNPS1, and ALYREF/THOC4. Seems to be a compound of RNA export complexes that are released from speckles in a ATP-dependent manner.
    SequenceCaution:
    • Sequence=AAC09321.1; Type=Frameshift; Positions=791; Evidence={ECO:0000305}; Sequence=AAP97290.1; Type=Frameshift; Positions=791; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SRRM1 Gene

    Alternative splice isoforms for SRRM1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SRRM1 Gene

Post-translational modifications for SRRM1 Gene

No data available for DME Specific Peptides for SRRM1 Gene

Domains & Families for SRRM1 Gene

Gene Families for SRRM1 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins
  • Transporters

Protein Domains for SRRM1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SRRM1 Gene

Graphical View of Domain Structure for InterPro Entry

Q8IYB3

UniProtKB/Swiss-Prot:

SRRM1_HUMAN :
  • Belongs to the splicing factor SR family.
Family:
  • Belongs to the splicing factor SR family.
genes like me logo Genes that share domains with SRRM1: view

Function for SRRM1 Gene

Molecular function for SRRM1 Gene

UniProtKB/Swiss-Prot Function:
Part of pre- and post-splicing multiprotein mRNP complexes. Involved in numerous pre-mRNA processing events. Promotes constitutive and exonic splicing enhancer (ESE)-dependent splicing activation by bridging together sequence-specific (SR family proteins, SFRS4, SFRS5 and TRA2B/SFRS10) and basal snRNP (SNRP70 and SNRPA1) factors of the spliceosome. Stimulates mRNA 3-end cleavage independently of the formation of an exon junction complex. Binds both pre-mRNA and spliced mRNA 20-25 nt upstream of exon-exon junctions. Binds RNA and DNA with low sequence specificity and has similar preference for either double- or single-stranded nucleic acid substrates.

Phenotypes From GWAS Catalog for SRRM1 Gene

Gene Ontology (GO) - Molecular Function for SRRM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding HDA,IEA 22681889
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with SRRM1: view
genes like me logo Genes that share phenotypes with SRRM1: view

Clone Products

  • Addgene plasmids for SRRM1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SRRM1 Gene

Localization for SRRM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SRRM1 Gene

Nucleus matrix. Nucleus speckle.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SRRM1 gene
Compartment Confidence
nucleus 5
cytosol 4
cytoskeleton 2
plasma membrane 1
extracellular 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SRRM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus TAS 9531537
GO:0005654 nucleoplasm TAS --
GO:0005681 spliceosomal complex IEA --
GO:0005829 cytosol TAS --
GO:0016363 nuclear matrix IEA --
genes like me logo Genes that share ontologies with SRRM1: view

Pathways & Interactions for SRRM1 Gene

genes like me logo Genes that share pathways with SRRM1: view

Pathways by source for SRRM1 Gene

Gene Ontology (GO) - Biological Process for SRRM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000375 RNA splicing, via transesterification reactions TAS 9531537
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006369 termination of RNA polymerase II transcription TAS --
GO:0006397 mRNA processing IEA --
GO:0006405 RNA export from nucleus TAS --
genes like me logo Genes that share ontologies with SRRM1: view

No data available for SIGNOR curated interactions for SRRM1 Gene

Drugs & Compounds for SRRM1 Gene

No Compound Related Data Available

Transcripts for SRRM1 Gene

Unigene Clusters for SRRM1 Gene

Serine/arginine repetitive matrix 1:
Representative Sequences:

Clone Products

  • Addgene plasmids for SRRM1

Alternative Splicing Database (ASD) splice patterns (SP) for SRRM1 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12a · 12b · 12c ^ 13 ^ 14 ^ 15a · 15b · 15c ^ 16 ^ 17 ^
SP1: - - -
SP2:
SP3: -
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11: - -
SP12:

ExUns: 18a · 18b ^ 19 ^ 20
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:

Relevant External Links for SRRM1 Gene

GeneLoc Exon Structure for
SRRM1
ECgene alternative splicing isoforms for
SRRM1

Expression for SRRM1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SRRM1 Gene

Protein differential expression in normal tissues from HIPED for SRRM1 Gene

This gene is overexpressed in Lavage (17.4), Serum (10.7), and Peripheral blood mononuclear cells (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SRRM1 Gene



Protein tissue co-expression partners for SRRM1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SRRM1 Gene:

SRRM1

SOURCE GeneReport for Unigene cluster for SRRM1 Gene:

Hs.18192

Evidence on tissue expression from TISSUES for SRRM1 Gene

  • Liver(4.6)
  • Blood(4.5)
  • Nervous system(4.4)
  • Kidney(2.4)
  • Intestine(2.3)
  • Skin(2.2)
  • Lung(2.1)
  • Muscle(2.1)
  • Eye(2)
genes like me logo Genes that share expression patterns with SRRM1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SRRM1 Gene

Orthologs for SRRM1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SRRM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SRRM1 33 34
  • 99.85 (n)
cow
(Bos Taurus)
Mammalia SRRM1 34
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia -- 34
  • 97 (a)
OneToMany
SRRM1 33
  • 93.44 (n)
-- 34
  • 89 (a)
OneToMany
-- 34
  • 84 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia SRRM1 34
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Srrm1 34
  • 94 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SRRM1 34
  • 84 (a)
OneToOne
chicken
(Gallus gallus)
Aves SRRM1 34
  • 89 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SRRM1 34
  • 85 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii srrm1 34
  • 58 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG11274 35
  • 64 (a)
SRm160 34
  • 28 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea rsr-1 34 35
  • 42 (a)
OneToOne
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.6562 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3168 34
  • 65 (a)
OneToOne
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4860 33
Species where no ortholog for SRRM1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for SRRM1 Gene

ENSEMBL:
Gene Tree for SRRM1 (if available)
TreeFam:
Gene Tree for SRRM1 (if available)

Paralogs for SRRM1 Gene

Pseudogenes.org Pseudogenes for SRRM1 Gene

genes like me logo Genes that share paralogs with SRRM1: view

No data available for Paralogs for SRRM1 Gene

Variants for SRRM1 Gene

Sequence variations from dbSNP and Humsavar for SRRM1 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000039548 -- 24,641,889(+) T/C upstream_transcript_variant
rs1000136852 -- 24,659,836(+) A/G intron_variant
rs1000168462 -- 24,645,775(+) T/C intron_variant
rs1000200078 -- 24,645,471(+) AA/AAAA intron_variant
rs1000222346 -- 24,650,941(+) A/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SRRM1 Gene

Variant ID Type Subtype PubMed ID
esv2745519 CNV deletion 23290073
nsv460862 CNV loss 19166990
nsv545824 CNV loss 21841781
nsv834458 CNV loss 17160897
nsv945828 CNV duplication 23825009
nsv947416 CNV duplication 23825009

Variation tolerance for SRRM1 Gene

Residual Variation Intolerance Score: 19.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.05; 37.59% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SRRM1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SRRM1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SRRM1 Gene

Disorders for SRRM1 Gene

Additional Disease Information for SRRM1

No disorders were found for SRRM1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SRRM1 Gene

Publications for SRRM1 Gene

  1. A coactivator of pre-mRNA splicing. (PMID: 9531537) Blencowe BJ … Sharp PA (Genes & development 1998) 2 3 4 22 58
  2. The spatial targeting and nuclear matrix binding domains of SRm160. (PMID: 12624182) Wagner S … Nickerson JA (Proceedings of the National Academy of Sciences of the United States of America 2003) 3 4 22 58
  3. The SRm160/300 splicing coactivator is required for exon-enhancer function. (PMID: 10339552) Eldridge AG … Blencowe BJ (Proceedings of the National Academy of Sciences of the United States of America 1999) 3 4 22 58
  4. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 58
  5. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PMID: 16964243) Beausoleil SA … Gygi SP (Nature biotechnology 2006) 3 4 58

Products for SRRM1 Gene

  • Addgene plasmids for SRRM1

Sources for SRRM1 Gene

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