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    Sf1 splicing factor 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 117855, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Sf1provided by RGD
    Official Full Name
    splicing factor 1provided by RGD
    Primary source
    RGD:620645
    See related
    Ensembl:ENSRNOG00000021085 AllianceGenome:RGD:620645
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Zfp162
    Summary
    Predicted to enable identical protein binding activity and mRNA binding activity. Involved in negative regulation of smooth muscle cell proliferation. Predicted to be located in nuclear body. Predicted to be part of spliceosomal complex. Predicted to be active in nucleus. Used to study ischemia. Orthologous to human SF1 (splicing factor 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 124.8), Spleen (RPKM 119.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sf1 in Genome Data Viewer
    Location:
    1q43
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (213090256..213112688)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (203670016..203683432)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (221735512..221749216)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene menin 1 Neighboring gene mitogen activated protein kinase kinase kinase kinase 2 Neighboring gene uncharacterized LOC134483960 Neighboring gene U7 small nuclear RNA Neighboring gene glycogen phosphorylase, muscle associated Neighboring gene uncharacterized LOC120097407 Neighboring gene RAS guanyl releasing protein 2

    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. ZFM1/SF1 mRNA in rat and gerbil brain after global ischaemia. Covini N, et al. Eur J Neurosci, 1999 Mar. PMID 10103072
    2. LncRNA MIAT promotes hypoxia-induced H9C2 cell pyroptosis via binding to SF1 to inhibit CGRP transcription. Zhou J. Exp Physiol, 2022 Jan. PMID 34713933
    3. Small nuclear RING finger protein stimulates the rat luteinizing hormone-beta promoter by interacting with Sp1 and steroidogenic factor-1 and protects from androgen suppression. Curtin D, et al. Mol Endocrinol, 2004 May. PMID 14988433
    4. Distinct roles for steroidogenic factor 1 and desert hedgehog pathways in fetal and adult Leydig cell development. Park SY, et al. Endocrinology, 2007 Aug. PMID 17495005
    5. Cytokine-induced down-regulation of zfm1/splicing factor-1 promotes smooth muscle cell proliferation. Cattaruzza M, et al. J Biol Chem, 2002 Feb 22. PMID 11748220

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LncRNA MIAT promotes hypoxia-induced H9C2 cell pyroptosis via binding to SF1 to inhibit CGRP transcription.
      Title: LncRNA MIAT promotes hypoxia-induced H9C2 cell pyroptosis via binding to SF1 to inhibit CGRP transcription.
    Submit: New GeneRIF Correction

    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 RGD

    Function Evidence Code Pubs
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables pre-mRNA branch point binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within Leydig cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within male sex determination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of smooth muscle cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within nuclear body organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of steroid biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of U2AF complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    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
    		  
    part_of spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    splicing factor 1
    Names
    zinc finger protein 162

    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_001110793.1 → NP_001104263.1  splicing factor 1 isoform 1

      See identical proteins and their annotated locations for NP_001104263.1

      Status: VALIDATED

      Source sequence(s)
      BC081859, BQ191177, BU671240, CO561066
      UniProtKB/TrEMBL
      F1LSC3
      Conserved Domains (2) summary
      smart00343
      Location:278 → 293
      ZnF_C2HC; zinc finger
      COG5176
      Location:17 → 257
      MSL5; Splicing factor (branch point binding protein) [RNA processing and modification]

    2. NM_058210.2 → NP_478117.2  splicing factor 1 isoform 2

      See identical proteins and their annotated locations for NP_478117.2

      Status: VALIDATED

      Source sequence(s)
      BC081859, BU671240
      UniProtKB/TrEMBL
      F1LM37
      Related
      ENSRNOP00000082510.1, ENSRNOT00000110004.1
      Conserved Domains (2) summary
      smart00343
      Location:278 → 293
      ZnF_C2HC; zinc finger
      COG5176
      Location:17 → 257
      MSL5; Splicing factor (branch point binding protein) [RNA processing and modification]

    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_086019.1 Reference GRCr8

      Range
      213090256..213112688
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063268843.1 → XP_063124913.1  splicing factor 1 isoform X2

    2. XM_039080582.2 → XP_038936510.1  splicing factor 1 isoform X8

      Conserved Domains (2) summary
      smart00343
      Location:278 → 293
      ZnF_C2HC; zinc finger
      COG5176
      Location:17 → 257
      MSL5; Splicing factor (branch point binding protein) [RNA processing and modification]

    3. XM_063269311.1 → XP_063125381.1  splicing factor 1 isoform X19

      UniProtKB/TrEMBL
      A0A8I6G7I2, A6HZG9

    4. XM_039080509.2 → XP_038936437.1  splicing factor 1 isoform X3

      Conserved Domains (2) summary
      smart00343
      Location:278 → 293
      ZnF_C2HC; zinc finger
      COG5176
      Location:17 → 257
      MSL5; Splicing factor (branch point binding protein) [RNA processing and modification]

    5. XM_039080601.2 → XP_038936529.1  splicing factor 1 isoform X9

      Related
      ENSRNOP00000079109.1
      Conserved Domains (2) summary
      smart00343
      Location:278 → 293
      ZnF_C2HC; zinc finger
      COG5176
      Location:17 → 257
      MSL5; Splicing factor (branch point binding protein) [RNA processing and modification]

    6. XM_063268911.1 → XP_063124981.1  splicing factor 1 isoform X4

    7. XM_063269089.1 → XP_063125159.1  splicing factor 1 isoform X11

    8. XM_039080398.2 → XP_038936326.1  splicing factor 1 isoform X1

      UniProtKB/TrEMBL
      F1LSC3
      Conserved Domains (2) summary
      smart00343
      Location:278 → 293
      ZnF_C2HC; zinc finger
      COG5176
      Location:17 → 257
      MSL5; Splicing factor (branch point binding protein) [RNA processing and modification]

    9. XM_063269180.1 → XP_063125250.1  splicing factor 1 isoform X14

    10. XM_063268935.1 → XP_063125005.1  splicing factor 1 isoform X5

    11. XM_063269141.1 → XP_063125211.1  splicing factor 1 isoform X13

      UniProtKB/TrEMBL
      A0A8I5ZQ56

    12. XM_063268967.1 → XP_063125037.1  splicing factor 1 isoform X6

      UniProtKB/TrEMBL
      F1LSC3

    13. XM_063269068.1 → XP_063125138.1  splicing factor 1 isoform X10

    14. XM_039080641.2 → XP_038936569.1  splicing factor 1 isoform X17

      UniProtKB/TrEMBL
      F1LM37, I6L9G4
      Related
      ENSRNOP00000041676.4
      Conserved Domains (3) summary
      smart00343
      Location:232 → 247
      ZnF_C2HC; zinc finger
      COG5176
      Location:23 → 211
      MSL5; Splicing factor (branch point binding protein) [RNA processing and modification]
      cd22382
      Location:89 → 181
      KH-I_SF1; type I K homology (KH) RNA-binding domain found in splicing factor 1 (SF1) and similar proteins

    15. XM_063269115.1 → XP_063125185.1  splicing factor 1 isoform X12

    16. XM_063269232.1 → XP_063125302.1  splicing factor 1 isoform X16

    17. XM_063268985.1 → XP_063125055.1  splicing factor 1 isoform X7

      UniProtKB/TrEMBL
      F1LSC3

    18. XM_063269208.1 → XP_063125278.1  splicing factor 1 isoform X15

      UniProtKB/TrEMBL
      F1LSC3

    19. XM_063269279.1 → XP_063125349.1  splicing factor 1 isoform X18

    Nucleotide Protein Strain
    Heading Accession and Version

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