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    U2surp U2 snRNP-associated SURP domain containing [ Mus musculus (house mouse) ]

    Gene ID: 67958, updated on 27-Nov-2024

    Summary

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    Official Symbol
    U2surpprovided by MGI
    Official Full Name
    U2 snRNP-associated SURP domain containingprovided by MGI
    Primary source
    MGI:MGI:1915208
    See related
    Ensembl:ENSMUSG00000032407 AllianceGenome:MGI:1915208
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Sr140; 2610101N10Rik
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in RNA processing. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in central nervous system and sensory organ. Orthologous to human U2SURP (U2 snRNP associated SURP domain containing). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in CNS E11.5 (RPKM 12.0), CNS E14 (RPKM 8.4) and 19 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See U2surp in Genome Data Viewer
    Location:
    9 E3.3; 9 50.11 cM
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (95338947..95394049, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (95456894..95511996, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer mm9_chr9:95326297-95326598 Neighboring gene FCF1 small subunit processome component homolog pseudogene Neighboring gene predicted gene, 32133 Neighboring gene STARR-positive B cell enhancer ABC_E6789 Neighboring gene STARR-seq mESC enhancer starr_24932 Neighboring gene STARR-seq mESC enhancer starr_24934 Neighboring gene progestin and adipoQ receptor family member IX Neighboring gene predicted gene, 32542

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. STRAP regulates alternative splicing fidelity during lineage commitment of mouse embryonic stem cells. Jin L, et al. Nat Commun, 2020 Nov 23. PMID 33230114, Free PMC Article
    2. Phosphoinositide-specific phospholipase C β 1b (PI-PLCβ1b) interactome: affinity purification-mass spectrometry analysis of PI-PLCβ1b with nuclear protein. Piazzi M, et al. Mol Cell Proteomics, 2013 Aug. PMID 23665500, Free PMC Article
    3. A CRISPR-based screen for Hedgehog signaling provides insights into ciliary function and ciliopathies. Breslow DK, et al. Nat Genet, 2018 Mar. PMID 29459677, Free PMC Article
    4. A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain. McKee AE, et al. BMC Dev Biol, 2005 Jul 20. PMID 16033648, Free PMC Article
    5. Complementary proteomics strategies capture an ataxin-1 interactome in Neuro-2a cells. Zhang S, et al. Sci Data, 2018 Nov 20. PMID 30457570, Free PMC Article

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    U2 snRNP-associated SURP motif-containing protein
    Names
    140 kDa Ser/Arg-rich domain protein
    U2-associated protein SR140

    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_001114977.1 → NP_001108449.1  U2 snRNP-associated SURP motif-containing protein isoform 1

      See identical proteins and their annotated locations for NP_001108449.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC159895
      Consensus CDS
      CCDS52889.1
      UniProtKB/Swiss-Prot
      E9QK93, Q6NV83, Q9CSW7, Q9CT00
      Related
      ENSMUSP00000078602.6, ENSMUST00000079659.12
      Conserved Domains (5) summary
      smart00582
      Location:541 → 676
      RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA
      COG0724
      Location:156 → 352
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12223
      Location:273 → 356
      RRM_SR140; RNA recognition motif (RRM) found in U2-associated protein SR140 and similar proteins
      cd21370
      Location:836 → 884
      cwf21_SR140; cwf21 domain found in U2-associated protein SR140 and similar proteins
      pfam01805
      Location:429 → 480
      Surp; Surp module

    2. NM_001357974.1 → NP_001344903.1  U2 snRNP-associated SURP motif-containing protein isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC159895
      Consensus CDS
      CCDS90640.1
      Related
      ENSMUSP00000151121.2, ENSMUST00000217176.2
      Conserved Domains (5) summary
      smart00582
      Location:540 → 675
      RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA
      COG0724
      Location:156 → 351
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12223
      Location:272 → 355
      RRM_SR140; RNA recognition motif (RRM) in U2-associated protein SR140 and similar proteins
      pfam01805
      Location:429 → 479
      Surp; Surp module
      pfam08312
      Location:842 → 883
      cwf21; cwf21 domain

    3. NM_001357975.1 → NP_001344904.1  U2 snRNP-associated SURP motif-containing protein isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC159895
      Conserved Domains (5) summary
      smart00582
      Location:496 → 631
      RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA
      COG0724
      Location:112 → 307
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12223
      Location:228 → 311
      RRM_SR140; RNA recognition motif (RRM) in U2-associated protein SR140 and similar proteins
      pfam01805
      Location:385 → 435
      Surp; Surp module
      pfam08312
      Location:798 → 839
      cwf21; cwf21 domain

    4. NM_001357976.1 → NP_001344905.1  U2 snRNP-associated SURP motif-containing protein isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5), as well as variant 6, encodes isoform 5.
      Source sequence(s)
      AC159895
      Conserved Domains (3) summary
      smart00582
      Location:132 → 267
      RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA
      pfam01805
      Location:19 → 70
      Surp; Surp module
      pfam08312
      Location:434 → 475
      cwf21; cwf21 domain

    5. NM_001357977.1 → NP_001344906.1  U2 snRNP-associated SURP motif-containing protein isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6), as well as variant 5, encodes isoform 5.
      Source sequence(s)
      AC159895
      Conserved Domains (3) summary
      smart00582
      Location:132 → 267
      RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA
      pfam01805
      Location:19 → 70
      Surp; Surp module
      pfam08312
      Location:434 → 475
      cwf21; cwf21 domain

    6. NM_026476.2 → NP_080752.2  U2 snRNP-associated SURP motif-containing protein isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the 5' coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.
      Source sequence(s)
      AC159895
      Consensus CDS
      CCDS40727.1
      UniProtKB/Swiss-Prot
      Q6NV83
      Related
      ENSMUSP00000077482.7, ENSMUST00000078374.13
      Conserved Domains (4) summary
      smart00582
      Location:497 → 632
      RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA
      cd12223
      Location:229 → 312
      RRM_SR140; RNA recognition motif (RRM) in U2-associated protein SR140 and similar proteins
      pfam01805
      Location:386 → 436
      Surp; Surp module
      pfam08312
      Location:799 → 840
      cwf21; cwf21 domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      95338947..95394049 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030244532.2 → XP_030100392.1  U2 snRNP-associated SURP motif-containing protein isoform X1

      Conserved Domains (3) summary
      smart00582
      Location:132 → 267
      RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA
      pfam01805
      Location:19 → 70
      Surp; Surp module
      pfam08312
      Location:434 → 475
      cwf21; cwf21 domain

    2. XM_030244531.1 → XP_030100391.1  U2 snRNP-associated SURP motif-containing protein isoform X1

      Conserved Domains (3) summary
      smart00582
      Location:132 → 267
      RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA
      pfam01805
      Location:19 → 70
      Surp; Surp module
      pfam08312
      Location:434 → 475
      cwf21; cwf21 domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6NV83.3 GenPept UniProtKB/Swiss-Prot:Q6NV83

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