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

Gene ID: 117855, updated on 2-Nov-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
EnsemblRapid: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 U2AF complex and 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, Nov 2024]
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 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
    Related
    ENSRNOP00000041676.5, ENSRNOT00000044866.7
    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
    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

    Related
    ENSRNOP00000079109.2, ENSRNOT00000100785.2
    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
    Related
    ENSRNOP00000082510.1, ENSRNOT00000110004.2

  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

    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

    Related
    ENSRNOP00000028628.8, ENSRNOT00000028628.9

  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
    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

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

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

Nucleotide Protein Strain
Heading Accession and Version

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