Skip to content
Use your HSA or FSA funds

Gene

STAG3

STAG3 cohesin complex component

Summary

Cytogenetic location
7q22.1
Coordinates
Chromosome 7: 100,177,918–100,214,381 (GRCh38)
Exons
34 exons across 36.5 kb
Protein
1,226 amino acids
Also known as
SA3
MANE Select transcript
ENST00000615138.5NM_001282717.2
Locus type
gene with protein product
  • Very high
  • Confident
  • Low
  • Very low

Reference genomeGRCh38

Positions on gene and variant pages follow this choice, in this browser.

Curated reports relevant to this gene

  • Female Infertility

    • Diminished or absent ability of a female to achieve conception.

      • 2 GenCC submitters rate it definitive or strong

  • Male Infertility

    • The inability of the male to effect fertilization of an ovum after a specified period of unprotected intercourse. Male sterility is permanent infertility.

      • 1 GenCC submitter rates it definitive or strong

How STAG3 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 7, with a bracket where STAG3 sits. STAG3 and 46 genes near it on chromosome 7, from 99,696,150 to 100,696,149.Chromosome 77q22.1p22.3p22.2p22.1p21.3p21.2p21.1p15.3p15.2p15.1p14.3p14.2p14.1p13p12.3p12.2p12.1p11.2p11.1q11.1q11.21q11.22q11.23q21.11q21.12q21.13q21.2q21.3q22.1q22.2q22.3q31.1q31.2q31.31q31.32q31.33q32.1q32.2q32.3q33q34q35q36.1q36.2q36.399.8 Mb100 Mb100.2 Mb100.4 Mb100.6 MbZSCAN25: 99,616,623–99,738,531, forward strandZSCAN25CYP3A7-CYP3A51P: 99,684,957–99,735,102, reverse strandCYP3A7-CYP3A51PCYP3A7: 99,704,105–99,735,196, reverse strandCYP3A7CYP3A4: 99,756,954–99,784,327, reverse strandCYP3A4CYP3A43: 99,827,922–99,867,801, forward strandCYP3A43OR2AE1: 99,876,062–99,877,033, reverse strandOR2AE1TRIM4: 99,876,958–99,919,604, reverse strandTRIM4GJC3: 99,923,266–99,929,620, reverse strandGJC3AZGP1: 99,966,720–99,976,074, reverse strandAZGP1ZKSCAN1: 100,015,570–100,047,430, forward strandZKSCAN1ZSCAN21: 100,049,767–100,081,304, forward strandZSCAN21ZNF3: 100,056,868–100,082,706, reverse strandZNF3COPS6: 100,088,948–100,095,185, forward strandMCM7: 100,092,233–100,101,940, reverse strandAP4M1: 100,100,841–100,110,345, forward strandTAF6: 100,106,876–100,127,187, reverse strandCNPY4: 100,119,614–100,125,511, forward strandCNPY4MBLAC1: 100,126,694–100,128,498, forward strandLAMTOR4: 100,148,888–100,155,945, forward strandLAMTOR4TRAPPC14: 100,154,420–100,158,737, reverse strandGAL3ST4: 100,159,244–100,168,953, reverse strandGAL3ST4GPC2: 100,169,602–100,177,389, reverse strandGPC2STAG3: 100,177,918–100,214,381, forward strandSTAG3: 100,205,357–100,221,488, forward strandPVRIG: 100,218,241–100,221,490, forward strandPVRIGSPDYE3: 100,307,702–100,322,372, forward strandSPDYE3PILRB: 100,351,627–100,367,831, forward strandPILRBPILRA: 100,367,530–100,400,098, forward strandPILRA: 100,397,577–100,434,107, forward strandZCWPW1: 100,400,826–100,428,992, reverse strandZCWPW1MEPCE: 100,428,322–100,435,138, forward strandMEPCEPPP1R35: 100,435,261–100,436,546, reverse strandSPACDR: 100,456,620–100,464,277, reverse strandTSC22D4: 100,466,508–100,479,257, reverse strand: 100,478,099–100,478,170, reverse strandNYAP1: 100,483,605–100,494,802, forward strandNYAP1AGFG2: 100,539,169–100,569,429, forward strandAGFG2SAP25: 100,572,228–100,573,916, reverse strandSAP25LRCH4: 100,574,011–100,586,236, reverse strandLRCH4FBXO24: 100,583,982–100,601,117, forward strandFBXO24PCOLCE: 100,602,321–100,608,175, forward strandMOSPD3: 100,612,102–100,616,004, forward strandTFR2: 100,620,416–100,642,779, reverse strandTFR2ACTL6B: 100,643,097–100,656,458, reverse strandACTL6BGNB2: 100,673,477–100,679,174, forward strandGNB2GIGYF1: 100,679,505–100,694,481, reverse strandGIGYF1POP7: 100,695,902–100,708,628, forward strandPOP7Diagram of STAG3: 34 exons on the forward strand of chromosome 7Exon 11: 1 known disease-causing siteExon 14: 1 known disease-causing siteExon 15: 1 known disease-causing siteExon 26: 2 known disease-causing sitesExon 27: 1 known disease-causing siteExon 28: 1 known disease-causing siteExon 30: 1 known disease-causing siteExon 32: 1 known disease-causing siteExon 1: 100,177,918–100,178,005, 88 basesExon 2: 100,180,493–100,180,672, 180 basesExon 3: 100,182,090–100,182,192, 103 basesExon 4: 100,182,723–100,182,839, 117 basesExon 5: 100,186,200–100,186,296, 97 basesExon 6: 100,188,453–100,188,529, 77 basesExon 7: 100,188,812–100,189,016, 205 basesExon 8: 100,189,445–100,189,596, 152 basesExon 9: 100,195,309–100,195,382, 74 basesExon 10: 100,197,156–100,197,279, 124 basesExon 11: 100,197,778–100,197,876, 99 basesExon 12: 100,198,087–100,198,166, 80 basesExon 13: 100,198,475–100,198,582, 108 basesExon 14: 100,198,843–100,198,957, 115 basesExon 15: 100,199,262–100,199,367, 106 basesExon 16: 100,199,541–100,199,644, 104 basesExon 17: 100,200,236–100,200,328, 93 basesExon 18: 100,200,453–100,200,542, 90 basesExon 19: 100,200,769–100,200,969, 201 basesExon 20: 100,201,090–100,201,160, 71 basesExon 21: 100,201,264–100,201,351, 88 basesExon 22: 100,201,786–100,201,866, 81 basesExon 23: 100,201,949–100,202,041, 93 basesExon 24: 100,202,172–100,202,340, 169 basesExon 25: 100,202,454–100,202,590, 137 basesExon 26: 100,204,021–100,204,122, 102 basesExon 27: 100,204,627–100,204,775, 149 basesExon 28: 100,205,005–100,205,133, 129 basesExon 29: 100,205,227–100,205,384, 158 basesExon 30: 100,211,011–100,211,185, 175 basesExon 31: 100,211,435–100,211,539, 105 basesExon 32: 100,211,795–100,211,876, 82 basesExon 33: 100,213,735–100,213,806, 72 basesExon 34: 100,214,007–100,214,381, 375 bases151015202530345′3′

Exons of the gene's MANE Select transcript (release v1.5), from NCBI and EMBL-EBI, on the GRCh38 reference genome.

Chromosome bands from UCSC's GRCh38 ideogram (2022-10-29).

Nearby genes from Ensembl release 116, on GRCh38.

Exons make up 4.2 kb of the gene's 36.5 kb; 3,681 of those bases code for the protein.

How a genome test reads STAG3

10

positions in STAG3 where ClinVar classes a change as pathogenic or likely pathogenic

3 of them (30%) fall in regions short reads find hard.

  • Segmental duplications (3 sites)Copies of at least 1 kb sharing at least 90% identity with another part of the genome (paralogues, pseudogenes); reads may align to the wrong copy.

A whole genome covers all 36.5 kb of STAG3, introns included, not only the 4.2 kb of exons.

Where this comes from

  • HGNC: the gene's symbol, name, other symbols and location.
  • MANE Select v1.5, from NCBI and EMBL-EBI: the transcript, its exons and coding sequence.
  • GenCC and ClinGen, released 2026-10-16: which conditions the gene is linked to, and how strongly.
  • The ACMG secondary findings list, SF v3.2.
  • ClinVar and the GIAB stratifications: known disease-causing sites, and the regions short reads find hard.
  • The Human Phenotype Ontology, release 2026-09-01: the traits linked to the gene. Find out more at hpo.jax.org.
  • Data release 2026.10.16-c6eea6bf.

Cite this page

APA

Dante Labs. (n.d.). STAG3 gene: STAG3 cohesin complex component. Retrieved 17 October 2026, from https://dantelabs.com/genes/stag3

Vancouver

Dante Labs. STAG3 gene: STAG3 cohesin complex component [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/stag3

One test. A lifetime of answers.

From $449Free shipping · Results in 6–8 weeks

Get my Genome Test