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Stag1 STAG1 cohesin complex component [ Mus musculus (house mouse) ]

Gene ID: 20842, updated on 21-Apr-2024

Summary

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Official Symbol
Stag1provided by MGI
Official Full Name
STAG1 cohesin complex componentprovided by MGI
Primary source
MGI:MGI:1098658
See related
Ensembl:ENSMUSG00000037286 AllianceGenome:MGI:1098658
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
SA-1; Scc3
Summary
Enables chromatin binding activity. Predicted to be involved in mitotic spindle assembly and sister chromatid cohesion. Predicted to act upstream of or within cell division and chromosome segregation. Located in chromatin. Is expressed in several structures, including alimentary system; genitourinary system; integumental system; midbrain; and telencephalon. Human ortholog(s) of this gene implicated in autosomal dominant mental retardation 47. Orthologous to human STAG1 (stromal antigen 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in placenta adult (RPKM 8.6), CNS E11.5 (RPKM 8.5) and 22 other tissues See more
Orthologs
human all
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Genomic context

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Location:
9 E3.3- E4; 9 52.77 cM
Exon count:
39
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (100479762..100840597)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (100597709..100958544)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E3854 Neighboring gene non-catalytic region of tyrosine kinase adaptor protein 1 Neighboring gene predicted gene, 46139 Neighboring gene solute carrier family 35, member G2 Neighboring gene STARR-seq mESC enhancer starr_25037 Neighboring gene STARR-positive B cell enhancer ABC_E6797 Neighboring gene predicted gene 8661 Neighboring gene adaptor-related protein complex 2, beta 1 subunit pseudogene Neighboring gene STARR-seq mESC enhancer starr_25043 Neighboring gene RIKEN cDNA 6720484G13 gene Neighboring gene STARR-positive B cell enhancer ABC_E11420 Neighboring gene STARR-positive B cell enhancer ABC_E2300 Neighboring gene STARR-seq mESC enhancer starr_25045 Neighboring gene propionyl Coenzyme A carboxylase, beta polypeptide Neighboring gene brain expressed X-linked 2 pseudogene

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. The contribution of cohesin-SA1 to gene expression and chromatin architecture in two murine tissues. Cuadrado A, et al. Nucleic Acids Res, 2015 Mar 31. PMID 25735743, Free PMC Article
  2. Distinct and overlapping roles of STAG1 and STAG2 in cohesin localization and gene expression in embryonic stem cells. Arruda NL, et al. Epigenetics Chromatin, 2020 Aug 10. PMID 32778134, Free PMC Article
  3. Cohesin-SA1 deficiency drives aneuploidy and tumourigenesis in mice due to impaired replication of telomeres. Remeseiro S, et al. EMBO J, 2012 May 2. PMID 22415365, Free PMC Article
  4. Cohesin Members Stag1 and Stag2 Display Distinct Roles in Chromatin Accessibility and Topological Control of HSC Self-Renewal and Differentiation. Viny AD, et al. Cell Stem Cell, 2019 Nov 7. PMID 31495782, Free PMC Article
  5. Essential Roles of Cohesin STAG2 in Mouse Embryonic Development and Adult Tissue Homeostasis. De Koninck M, et al. Cell Rep, 2020 Aug 11. PMID 32783938

See all (41) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The N-terminus of Stag1 is required to repress the 2C program by maintaining rRNA expression and nucleolar integrity.
    Title: The N-terminus of Stag1 is required to repress the 2C program by maintaining rRNA expression and nucleolar integrity.
  2. Distinct and overlapping roles of STAG1 and STAG2 in cohesin localization and gene expression in embryonic stem cells.
    Title: Distinct and overlapping roles of STAG1 and STAG2 in cohesin localization and gene expression in embryonic stem cells.
  3. reduced dosage of SA1 altered the architecture of the Reg locus and decreased the expression of Reg genes in the pancreas of SA1 heterozygous mice
    Title: The contribution of cohesin-SA1 to gene expression and chromatin architecture in two murine tissues.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (1) 
  • Endonuclease-mediated (2) 

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 chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chromatin binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within cell cycle IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within cell division IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within chromosome segregation IEA
Inferred from Electronic Annotation
more info
  
involved_in localization ISO
Inferred from Sequence Orthology
more info
  
involved_in mitotic spindle assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in sister chromatid cohesion IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of chromatin IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of chromatin IDA
Inferred from Direct Assay
more info
 PubMed 
part_of chromatin ISO
Inferred from Sequence Orthology
more info
  
located_in chromosome IEA
Inferred from Electronic Annotation
more info
  
part_of cohesin complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of cohesin complex ISO
Inferred from Sequence Orthology
more info
  
located_in mitotic spindle pole ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear matrix ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
cohesin subunit SA-1
Names
SCC3 homolog 1
stromal antigen 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_001357264.2 → NP_001344193.1  cohesin subunit SA-1 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AC115355, AC134825, AC146297, AC147565
    Conserved Domains (1) summary
    pfam08514
    Location:23 → 131
    STAG; STAG domain

  2. NM_001357265.2 → NP_001344194.1  cohesin subunit SA-1 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (3) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AC115355, AC134825, AC146297, AC147565
    UniProtKB/TrEMBL
    F6XQW1
    Related
    ENSMUSP00000120974.2, ENSMUST00000146934.8

  3. NM_001420288.1 → NP_001407217.1  cohesin subunit SA-1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC115355, AC134825, AC146297, AC147565
    UniProtKB/Swiss-Prot
    O08982, Q6P5D1, Q9D3E6

  4. NM_001420289.1 → NP_001407218.1  cohesin subunit SA-1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC115355, AC134825, AC146297, AC147565

  5. NM_009282.5 → NP_033308.2  cohesin subunit SA-1 isoform 1

    See identical proteins and their annotated locations for NP_033308.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC115355, AC134825, AC146297, AC147565
    Consensus CDS
    CCDS23441.1
    UniProtKB/Swiss-Prot
    O08982, Q6P5D1, Q9D3E6
    Related
    ENSMUSP00000116205.2, ENSMUST00000129269.8
    Conserved Domains (2) summary
    pfam08514
    Location:160 → 268
    STAG; STAG domain
    pfam14621
    Location:3 → 58
    RFX5_DNA_bdg; RFX5 DNA-binding 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
    100479762..100840597
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006510924.4 → XP_006510987.1  cohesin subunit SA-1 isoform X1

    See identical proteins and their annotated locations for XP_006510987.1

    UniProtKB/Swiss-Prot
    O08982, Q6P5D1, Q9D3E6
    Conserved Domains (2) summary
    pfam08514
    Location:160 → 268
    STAG; STAG domain
    pfam14621
    Location:3 → 58
    RFX5_DNA_bdg; RFX5 DNA-binding domain

  2. XM_030244173.2 → XP_030100033.1  cohesin subunit SA-1 isoform X3

    Conserved Domains (1) summary
    pfam08514
    Location:63 → 171
    STAG; STAG domain

  3. XM_006510925.2 → XP_006510988.1  cohesin subunit SA-1 isoform X2

    UniProtKB/TrEMBL
    F8WHU7
    Related
    ENSMUSP00000040724.7, ENSMUST00000041418.13
    Conserved Domains (2) summary
    pfam08514
    Location:160 → 268
    STAG; STAG domain
    pfam14621
    Location:3 → 58
    RFX5_DNA_bdg; RFX5 DNA-binding domain

  4. XM_011242692.3 → XP_011240994.1  cohesin subunit SA-1 isoform X6

    Conserved Domains (2) summary
    pfam08514
    Location:160 → 268
    STAG; STAG domain
    pfam14621
    Location:3 → 58
    RFX5_DNA_bdg; RFX5 DNA-binding domain

  5. XM_036154768.1 → XP_036010661.1  cohesin subunit SA-1 isoform X5

    Conserved Domains (1) summary
    pfam08514
    Location:23 → 131
    STAG; STAG domain

  6. XM_030244172.2 → XP_030100032.1  cohesin subunit SA-1 isoform X1

    UniProtKB/Swiss-Prot
    O08982, Q6P5D1, Q9D3E6
    Conserved Domains (2) summary
    pfam08514
    Location:160 → 268
    STAG; STAG domain
    pfam14621
    Location:3 → 58
    RFX5_DNA_bdg; RFX5 DNA-binding domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9D3E6.3 GenPept UniProtKB/Swiss-Prot:Q9D3E6

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