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    Srrm1 serine and arginine repetitive matrix 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313620, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Srrm1provided by RGD
    Official Full Name
    serine and arginine repetitive matrix 1provided by RGD
    Primary source
    RGD:1311258
    See related
    Ensembl:ENSRNOG00000018194 AllianceGenome:RGD:1311258
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to be involved in mRNA processing. Predicted to be located in nuclear speck. Predicted to be part of catalytic step 2 spliceosome. Orthologous to human SRRM1 (serine and arginine repetitive matrix 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 156.6), Thymus (RPKM 151.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Srrm1 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (152843167..152875554, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (147559515..147591895, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (153675619..153708187, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene chloride intracellular channel 4 Neighboring gene uncharacterized LOC134479039 Neighboring gene uncharacterized LOC120103007 Neighboring gene noncompact myelin associated protein Neighboring gene uncharacterized LOC134487010 Neighboring gene RCAN family member 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. A preliminary investigation on placenta protein profile reveals only modest changes in well controlled gestational diabetes mellitus. Lapolla A, et al. Eur J Mass Spectrom (Chichester), 2013. PMID 24308201
    2. The ever-increasing complexities of the exon junction complex. Tange TØ, et al. Curr Opin Cell Biol, 2004 Jun. PMID 15145352
    3. Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors. Chen YI, et al. Nucleic Acids Res, 2007. PMID 17537823, Free PMC Article
    4. Large-scale identification of mammalian proteins localized to nuclear sub-compartments. Sutherland HG, et al. Hum Mol Genet, 2001 Sep 1. PMID 11555636
    5. Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis. Jurica MS, et al. RNA, 2002 Apr. PMID 11991638, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of catalytic step 2 spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    serine/arginine repetitive matrix protein 1
    Names
    serine/arginine repetitive matrix 1

    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_001107986.2 → NP_001101456.2  serine/arginine repetitive matrix protein 1

      See identical proteins and their annotated locations for NP_001101456.2

      Status: PROVISIONAL

      Source sequence(s)
      BC166715
      UniProtKB/TrEMBL
      A0A8I6ATQ3, B2RYB3
      Related
      ENSRNOP00000097970.1, ENSRNOT00000096755.1
      Conserved Domains (2) summary
      pfam00906
      Location:611 → 702
      Hepatitis_core; Hepatitis core antigen
      pfam01480
      Location:46 → 115
      PWI; PWI domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086023.1 Reference GRCr8

      Range
      152843167..152875554 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039110051.2 → XP_038965979.1  serine/arginine repetitive matrix protein 1 isoform X7

      UniProtKB/TrEMBL
      A0A8I6ATQ3
      Conserved Domains (3) summary
      PHA03307
      Location:399 → 734
      PHA03307; transcriptional regulator ICP4; Provisional
      PRK12323
      Location:601 → 796
      PRK12323; DNA polymerase III subunit gamma/tau
      pfam01480
      Location:46 → 115
      PWI; PWI domain

    2. XM_039110050.2 → XP_038965978.1  serine/arginine repetitive matrix protein 1 isoform X6

      UniProtKB/TrEMBL
      A0A8I6ATQ3
      Conserved Domains (3) summary
      PHA03247
      Location:377 → 725
      PHA03247; large tegument protein UL36; Provisional
      PRK12323
      Location:602 → 797
      PRK12323; DNA polymerase III subunit gamma/tau
      pfam01480
      Location:46 → 115
      PWI; PWI domain

    3. XM_063287766.1 → XP_063143836.1  serine/arginine repetitive matrix protein 1 isoform X4

      UniProtKB/TrEMBL
      A0A8I6ATQ3

    4. XM_006239184.5 → XP_006239246.1  serine/arginine repetitive matrix protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8I6ATQ3
      Conserved Domains (2) summary
      pfam00906
      Location:617 → 708
      Hepatitis_core; Hepatitis core antigen
      pfam01480
      Location:46 → 115
      PWI; PWI domain

    5. XM_006239185.5 → XP_006239247.1  serine/arginine repetitive matrix protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A8I6ATQ3, F7FND9
      Related
      ENSRNOP00000052955.3
      Conserved Domains (2) summary
      pfam00906
      Location:610 → 701
      Hepatitis_core; Hepatitis core antigen
      pfam01480
      Location:46 → 115
      PWI; PWI domain

    6. XM_006239183.5 → XP_006239245.1  serine/arginine repetitive matrix protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8I6ATQ3
      Conserved Domains (2) summary
      pfam00906
      Location:624 → 715
      Hepatitis_core; Hepatitis core antigen
      pfam01480
      Location:46 → 115
      PWI; PWI domain

    7. XM_006239182.5 → XP_006239244.1  serine/arginine repetitive matrix protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZV38, A0A8I6ATQ3
      Related
      ENSRNOP00000082336.1
      Conserved Domains (2) summary
      pfam00906
      Location:625 → 716
      Hepatitis_core; Hepatitis core antigen
      pfam01480
      Location:46 → 115
      PWI; PWI domain

    8. XM_063287769.1 → XP_063143839.1  serine/arginine repetitive matrix protein 1 isoform X13

      UniProtKB/TrEMBL
      A0A8I6ATQ3

    9. XM_063287768.1 → XP_063143838.1  serine/arginine repetitive matrix protein 1 isoform X12

      UniProtKB/TrEMBL
      A0A8I6ATQ3

    10. XM_039110052.2 → XP_038965980.1  serine/arginine repetitive matrix protein 1 isoform X11

      UniProtKB/TrEMBL
      A0A8I6ATQ3
      Conserved Domains (3) summary
      PHA03247
      Location:347 → 703
      PHA03247; large tegument protein UL36; Provisional
      PHA03307
      Location:580 → 776
      PHA03307; transcriptional regulator ICP4; Provisional
      pfam01480
      Location:46 → 115
      PWI; PWI domain

    11. XM_063287767.1 → XP_063143837.1  serine/arginine repetitive matrix protein 1 isoform X9

      UniProtKB/TrEMBL
      A0A8I6ATQ3

    12. XM_017593406.3 → XP_017448895.1  serine/arginine repetitive matrix protein 1 isoform X8

      UniProtKB/TrEMBL
      A0A8I6ATQ3

    13. XM_063287770.1 → XP_063143840.1  serine/arginine repetitive matrix protein 1 isoform X14

      UniProtKB/TrEMBL
      A0A8I6ATQ3

    14. XM_008764242.4 → XP_008762464.1  serine/arginine repetitive matrix protein 1 isoform X10

      UniProtKB/TrEMBL
      A0A8I6ATQ3
      Conserved Domains (2) summary
      pfam00906
      Location:586 → 677
      Hepatitis_core; Hepatitis core antigen
      pfam01480
      Location:7 → 76
      PWI; PWI domain

    15. XM_063287771.1 → XP_063143841.1  serine/arginine repetitive matrix protein 1 isoform X15

      UniProtKB/TrEMBL
      A0A8I6ATQ3

    16. XM_063287772.1 → XP_063143842.1  serine/arginine repetitive matrix protein 1 isoform X16

      UniProtKB/TrEMBL
      A0A8I6ATQ3

    17. XM_017593407.3 → XP_017448896.1  serine/arginine repetitive matrix protein 1 isoform X15

      UniProtKB/TrEMBL
      A0A8I6ATQ3
      Conserved Domains (2) summary
      PHA03247
      Location:306 → 734
      PHA03247; large tegument protein UL36; Provisional
      pfam01480
      Location:1 → 32
      PWI; PWI domain

    18. XM_063287773.1 → XP_063143843.1  serine/arginine repetitive matrix protein 1 isoform X17

    Nucleotide Protein Strain
    Heading Accession and Version

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