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STAG3 stromal antigen 3 [ Homo sapiens (human) ]

Gene ID: 10734, updated on 12-Aug-2022

Summary

Official Symbol
STAG3provided by HGNC
Official Full Name
stromal antigen 3provided by HGNC
Primary source
HGNC:HGNC:11356
See related
Ensembl:ENSG00000066923 MIM:608489; AllianceGenome:HGNC:11356
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SPGF61
Summary
The protein encoded by this gene is expressed in the nucleus and is a subunit of the cohesin complex which regulates the cohesion of sister chromatids during cell division. A mutation in this gene is associated with premature ovarian failure. Alternate splicing results in multiple transcript variants encoding distinct isoforms. This gene has multiple pseudogenes. [provided by RefSeq, Apr 2014]
Expression
Biased expression in testis (RPKM 44.6), brain (RPKM 6.1) and 2 other tissues See more
Orthologs
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Genomic context

See STAG3 in Genome Data Viewer
Location:
7q22.1
Exon count:
37
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (100177724..100219334)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (101417534..101454200)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (99775347..99812010)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene galactose-3-O-sulfotransferase 4 Neighboring gene 60S ribosomal protein L29-like Neighboring gene glypican 2 Neighboring gene CASTOR family member 3, pseudogene Neighboring gene PVR related immunoglobulin domain containing Neighboring gene uncharacterized LOC105375426 Neighboring gene speedy/RINGO cell cycle regulator family member E3 Neighboring gene PMS1 homolog 2, mismatch repair system component pseudogene 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
is_active_in chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in chromosome, centromeric region IEA
Inferred from Electronic Annotation
more info
 
part_of cohesin complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in extracellular space HDA PubMed 
part_of meiotic cohesin complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleolus IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleus IC
Inferred by Curator
more info
PubMed 
located_in synaptonemal complex TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
cohesin subunit SA-3
Names
SCC3 homolog 3
stromalin-3

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.

Genomic

  1. NG_034114.1 RefSeqGene

    Range
    5001..41664
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001282716.1NP_001269645.1  cohesin subunit SA-3 isoform 1

    See identical proteins and their annotated locations for NP_001269645.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AA747738, AJ007798, BC146806
    Consensus CDS
    CCDS34703.1
    UniProtKB/Swiss-Prot
    Q8NDP3, Q9UJ98
    Related
    ENSP00000400359.1, ENST00000426455.5
    Conserved Domains (1) summary
    pfam08514
    Location:173281
    STAG; STAG domain
  2. NM_001282717.2NP_001269646.1  cohesin subunit SA-3 isoform 2

    See identical proteins and their annotated locations for NP_001269646.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame acceptor splice site in the 3' coding region compared to variant 1. The resulting isoform (2) is 1 aa longer than isoform 1. Variants 3 and 5 both encode the same isoform (2).
    Source sequence(s)
    AC005071, AC073842
    Consensus CDS
    CCDS75642.1
    UniProtKB/Swiss-Prot
    Q9UJ98
    UniProtKB/TrEMBL
    D6W5U7
    Related
    ENSP00000477973.1, ENST00000615138.5
    Conserved Domains (1) summary
    pfam08514
    Location:173281
    STAG; STAG domain
  3. NM_001282718.2NP_001269647.1  cohesin subunit SA-3 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and lacks 2 consecutive in-frame exons in the 5' coding region compared to variant 1. The resulting shorter isoform (3) lacks an in internal protein segment compared to isoform 1.
    Source sequence(s)
    AA747738, AJ007798, AK302693, BC146806, DB097403
    Consensus CDS
    CCDS64730.1
    UniProtKB/Swiss-Prot
    Q9UJ98
    Related
    ENSP00000484098.1, ENST00000620100.5
    Conserved Domains (1) summary
    pfam08514
    Location:115223
    STAG; STAG domain
  4. NM_001375438.1NP_001362367.1  cohesin subunit SA-3 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5), as well as variant 3, encodes isoform 2.
    Source sequence(s)
    AC005071, AC073842
    UniProtKB/TrEMBL
    D6W5U7
    Conserved Domains (1) summary
    pfam08514
    Location:173281
    STAG; STAG domain
  5. NM_012447.4NP_036579.2  cohesin subunit SA-3 isoform 1

    See identical proteins and their annotated locations for NP_036579.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the predominant transcript and encodes isoform 1. Variants 1 and 2 encode the same isoform.
    Source sequence(s)
    AA747738, AJ007798, BC146806
    Consensus CDS
    CCDS34703.1
    UniProtKB/Swiss-Prot
    Q8NDP3, Q9UJ98
    Related
    ENSP00000319318.5, ENST00000317296.9
    Conserved Domains (1) summary
    pfam08514
    Location:173281
    STAG; STAG domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    100177724..100219334
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017011685.2XP_016867174.2  cohesin subunit SA-3 isoform X1

  2. XM_047419788.1XP_047275744.1  cohesin subunit SA-3 isoform X4

    UniProtKB/TrEMBL
    D6W5U7
  3. XM_047419796.1XP_047275752.1  cohesin subunit SA-3 isoform X9

  4. XM_017011683.3XP_016867172.1  cohesin subunit SA-3 isoform X3

  5. XM_047419787.1XP_047275743.1  cohesin subunit SA-3 isoform X1

  6. XM_047419786.1XP_047275742.1  cohesin subunit SA-3 isoform X1

  7. XM_017011686.3XP_016867175.2  cohesin subunit SA-3 isoform X2

  8. XM_047419797.1XP_047275753.1  cohesin subunit SA-3 isoform X10

  9. XM_047419792.1XP_047275748.1  cohesin subunit SA-3 isoform X6

  10. XM_017011687.2XP_016867176.2  cohesin subunit SA-3 isoform X7

  11. XM_017011684.2XP_016867173.2  cohesin subunit SA-3 isoform X1

  12. XM_047419793.1XP_047275749.1  cohesin subunit SA-3 isoform X6

  13. XM_047419789.1XP_047275745.1  cohesin subunit SA-3 isoform X4

    UniProtKB/TrEMBL
    D6W5U7
  14. XM_047419791.1XP_047275747.1  cohesin subunit SA-3 isoform X5

    UniProtKB/Swiss-Prot
    Q8NDP3
  15. XM_047419795.1XP_047275751.1  cohesin subunit SA-3 isoform X9

  16. XM_047419790.1XP_047275746.1  cohesin subunit SA-3 isoform X5

    UniProtKB/Swiss-Prot
    Q8NDP3
  17. XM_047419794.1XP_047275750.1  cohesin subunit SA-3 isoform X8

  18. XM_047419798.1XP_047275754.1  cohesin subunit SA-3 isoform X11

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    101417534..101454200
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)