LOCUS       NM_016964               4246 bp    mRNA    linear   ROD 10-FEB-2025
DEFINITION  Mus musculus STAG3 cohesin complex component (Stag3), mRNA.
ACCESSION   NM_016964
VERSION     NM_016964.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 4246)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 4246)
  AUTHORS   Guan,Y., Lin,H., Leu,N.A., Ruthel,G., Fuchs,S.Y., Busino,L., Luo,M.
            and Wang,P.J.
  TITLE     SCF ubiquitin E3 ligase regulates DNA double-strand breaks in early
            meiotic recombination
  JOURNAL   Nucleic Acids Res 50 (9), 5129-5144 (2022)
   PUBMED   35489071
REFERENCE   3  (bases 1 to 4246)
  AUTHORS   He,Y., Chen,Q., Dai,J., Cui,Y., Zhang,C., Wen,X., Li,J., Xiao,Y.,
            Peng,X., Liu,M., Shen,B., Sha,J., Hu,Z., Li,J. and Shu,W.
  TITLE     Single-cell RNA-Seq reveals a highly coordinated transcriptional
            program in mouse germ cells during primordial follicle formation
  JOURNAL   Aging Cell 20 (7), e13424 (2021)
   PUBMED   34174788
REFERENCE   4  (bases 1 to 4246)
  AUTHORS   Bhattacharyya,T., Walker,M., Powers,N.R., Brunton,C., Fine,A.D.,
            Petkov,P.M. and Handel,M.A.
  TITLE     Prdm9 and Meiotic Cohesin Proteins Cooperatively Promote DNA
            Double-Strand Break Formation in Mammalian Spermatocytes
  JOURNAL   Curr Biol 29 (6), 1002-1018 (2019)
   PUBMED   30853435
  REMARK    GeneRIF: STAG3 deficiency has a major effect on DNA double-strand
            breaks number even in the absence of PRDM9, showing that its role
            is not restricted to canonical PRDM9-activated hotspots.
            Erratum:[Curr Biol. 2021 Mar 22;31(6):1351. doi:
            10.1016/j.cub.2021.03.002.. PMID: 33756132]
REFERENCE   5  (bases 1 to 4246)
  AUTHORS   Sundberg,J.P., Dadras,S.S., Silva,K.A., Kennedy,V.E., Garland,G.,
            Murray,S.A., Sundberg,B.A., Schofield,P.N. and Pratt,C.H.
  TITLE     Systematic screening for skin, hair, and nail abnormalities in a
            large-scale knockout mouse program
  JOURNAL   PLoS One 12 (7), e0180682 (2017)
   PUBMED   28700664
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4246)
  AUTHORS   Prieto,I., Pezzi,N., Buesa,J.M., Kremer,L., Barthelemy,I.,
            Carreiro,C., Roncal,F., Martinez,A., Gomez,L., Fernandez,R.,
            Martinez-A,C. and Barbero,J.L.
  TITLE     STAG2 and Rad21 mammalian mitotic cohesins are implicated in
            meiosis
  JOURNAL   EMBO Rep 3 (6), 543-550 (2002)
   PUBMED   12034751
REFERENCE   7  (bases 1 to 4246)
  AUTHORS   Bayes,M., Prieto,I., Noguchi,J., Barbero,J.L. and Perez Jurado,L.A.
  TITLE     Evaluation of the Stag3 gene and the synaptonemal complex in a rat
            model (as/as) for male infertility
  JOURNAL   Mol Reprod Dev 60 (3), 414-417 (2001)
   PUBMED   11599053
REFERENCE   8  (bases 1 to 4246)
  AUTHORS   Prieto,I., Suja,J.A., Pezzi,N., Kremer,L., Martinez-A,C.,
            Rufas,J.S. and Barbero,J.L.
  TITLE     Mammalian STAG3 is a cohesin specific to sister chromatid arms in
            meiosis I
  JOURNAL   Nat Cell Biol 3 (8), 761-766 (2001)
   PUBMED   11483963
REFERENCE   9  (bases 1 to 4246)
  AUTHORS   Valero,M.C., de Luis,O., Cruces,J. and Perez Jurado,L.A.
  TITLE     Fine-scale comparative mapping of the human 7q11.23 region and the
            orthologous region on mouse chromosome 5G: the low-copy repeats
            that flank the Williams-Beuren syndrome deletion arose at
            breakpoint sites of an evolutionary inversion(s)
  JOURNAL   Genomics 69 (1), 1-13 (2000)
   PUBMED   11013070
REFERENCE   10 (bases 1 to 4246)
  AUTHORS   Pezzi,N., Prieto,I., Kremer,L., Perez Jurado,L.A., Valero,C., Del
            Mazo,J., Martinez-A,C. and Barbero,J.L.
  TITLE     STAG3, a novel gene encoding a protein involved in meiotic
            chromosome pairing and location of STAG3-related genes flanking the
            Williams-Beuren syndrome deletion
  JOURNAL   FASEB J 14 (3), 581-592 (2000)
   PUBMED   10698974
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BC060184.1 and AJ005678.1.
            
            [WARNING] On Mar 12, 2025 this sequence was replaced by
            NM_016964.3.
            
            On Oct 30, 2007 this sequence version replaced NM_016964.1.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AJ005678.1, BC139010.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849384, SAMN01164131
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-67                BC060184.1         1-67
            68-1813             AJ005678.1         26-1771
            1814-4246           BC060184.1         2255-4687
FEATURES             Location/Qualifiers
     source          1..4246
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="5"
                     /map="5 77.01 cM"
     gene            1..4246
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /note="STAG3 cohesin complex component"
                     /db_xref="GeneID:50878"
                     /db_xref="MGI:MGI:1355311"
     exon            1..146
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            147..320
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     CDS             157..3879
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /note="SCC3 homolog 3; stromalin-3; stromal antigen 3"
                     /codon_start=1
                     /product="cohesin subunit SA-3"
                     /protein_id="NP_058660.2"
                     /db_xref="CCDS:CCDS39344.1"
                     /db_xref="GeneID:50878"
                     /db_xref="MGI:MGI:1355311"
                     /translation="MPTLWSPSTQHHGSSSGSESSPLQKSVRRAQMALSPCSSSILPC
                     DDRDSQGTAEWDSPSTNEDSDFEDSLRRNVKKRAAKQPPKAVPAAKHRKKQSRIVSSG
                     NGKNESVPSTNYLFDAVKAARSCMQSLVDEWLDNYKQDENAGFLELINFFIRACGCKS
                     TVTPEMFKTMSNSEIIQHLTEEFNEDSGDYPLTAPGPSWKKFQGSFCEFVKTLVYQCQ
                     YSLLYDGFPMDDLISLLIGLSDSQVRAFRHTSTLAAMKLMTSLVKVALQLSLHKDNNQ
                     RQYEAERNKGPEQRAPERLESLLEKRKEFQENQEDIEGMMNAIFRGVFVHRYRDILPE
                     IRAICIEEIGYWMQSYSTSFLNDSYLKYIGWTLHDKHKEVRLKCVKALAGLYSNQELS
                     LRMELFTNRFKDRMVSMVMDRECEVAVEAIRLLTLILKNMEGVLTSADCEKIYSIVYI
                     SNRAMASSAGEFVYWKIFHPECGAKAVSDRERRRSPQAQKTFIYLLLAFFMESEHHNH
                     AAYLVDSLWDCAGSYLKDWESLTNLLLQKDQNLGDMQERMLIEILVSSARQAAEGHPP
                     VGRITGKKSLTAKERKLQAYDKMKLAEHLIPLLPQLLAKFSADAENVAPLLQLLSYFD
                     LSIYCTQRLEKHLELLLQQLQEVVVKHVEPEVLEAAAHALYLLCKPEFTFFSRVDFAR
                     SQLVDFLTDRFQQELDDLMQSSFLDEDEVYSLTATLKRLSAFYNAHDLTRWEISEPCS
                     RLLRKAVDTGEVPHQVILPALTLVYFSILWTVTHISESTSHKQLMSLKKRMVAFCELC
                     QSCLSDVDPEIQEQAFVLLSDLLLIFSPQMIVGGRDFLRPLVFFPEATLQSELASFLM
                     DHVFLQPGELGNGQSQEDHVQIELLHQRRRLLAGFCKLLLYGVLELDAASDVFKHYNK
                     FYEDYGDIIKETLTRARQIDRCQCSRILLLSLKQLYTELIQEQGPQGLTELPAFIEMR
                     DLARRFALSFGPQQLHNRDLVVMLHKEGIKFSLSELPPAGSSHEPPNLAFLELLSEFS
                     PRLFHQDKRLLLSYLEKCLQRVSKAPNHPWGPVTTYCHSLHPLEITAEASPRGPPHSK
                     KRCVEGPCRPQEEESSSQEESLQLNSGPTTPTLTSTAVKRKQSLRTVGKKQKGRPGPG
                     PGPGPELICSQQLLGTQRLKMSSAPCFQIRCDPSGSGLGKQLTRLSLMEEDEEEELRL
                     LDEEWQRGDKMLHSPSSPSEHGLDLLDTTELNMEDF"
     exon            321..417
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            418..537
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            538..634
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            635..711
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            712..916
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            917..1068
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1069..1142
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1143..1266
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1267..1365
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1366..1445
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1446..1553
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1554..1668
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1669..1774
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1775..1878
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1879..1971
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1972..2061
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2062..2262
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2263..2333
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2334..2421
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2422..2499
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2500..2592
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2593..2761
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2762..2898
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2899..3000
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3001..3149
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3150..3278
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3279..3436
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3437..3623
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3624..3725
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3726..3798
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3799..3870
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3871..4228
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4204..4209
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /note="hexamer: AATAAA"
     polyA_site      4228
                     /gene="Stag3"
                     /gene_synonym="SA-2"
                     /note="major polyA site"
ORIGIN      
        1 ccgcgttttt ttctaaggct taaccgcccg ccaccagagg aagaagagca gctgcggcgg
       61 gcgtctcgcg accgaggtgg gatgtccact gagacctgaa aggacctctg aggtggtgac
      121 ctttcttcag ccgtgttcat ctaaagctgg attaacatgc ctactctgtg gtcaccttct
      181 acccagcacc atggctcttc ctcaggcagt gagtcttccc cacttcaaaa gtctgtgaga
      241 cgtgcacaga tggccttgtc tccttgttcc tcctccatcc taccctgtga tgacagagac
      301 tcacagggaa ctgcagagtg ggatagtccc tcaactaacg aagacagcga ctttgaagac
      361 agcttaagac gaaatgtgaa gaagagagca gcaaagcaac cacccaaagc tgttccagca
      421 gcaaaacatc ggaagaagca gtcccgaata gtatctagtg ggaatggcaa gaatgaatca
      481 gtgccatcaa ccaattacct ttttgatgct gtgaaagctg ctagaagttg catgcagtct
      541 ttggtggatg agtggctaga taactacaag caagatgaaa atgcaggatt cttggagctc
      601 attaattttt tcatccgagc ctgtggatgt aaaagcactg tgactcctga gatgttcaag
      661 acaatgtcca attcagagat catccaacac ctaacggaag agtttaatga ggactcgggg
      721 gactatcccc tgacagctcc aggtccctcc tggaagaagt tccagggaag cttctgtgag
      781 tttgtgaaga cattggtcta tcagtgccag tacagtctcc tctatgatgg ctttcctatg
      841 gatgacctta tctccctgct cattggcctc tcagattccc aggtccgagc ctttcgtcat
      901 actagtaccc tggctgccat gaagctaatg acttctctgg taaaagttgc actccagttg
      961 agtctgcaca aagacaacaa tcaacgtcag tatgaggctg aacgaaacaa ggggccagag
     1021 cagagagcac cggaacgact ggagagtctg ctggagaaac gaaaagagtt ccaagagaat
     1081 caagaggaca tagaggggat gatgaatgcc atcttcagag gtgtctttgt ccatcggtac
     1141 agggacatcc ttcctgagat ccgcgctatc tgcattgagg agattgggta ttggatgcaa
     1201 agctacagca cctcctttct taatgacagc tacctaaaat acatcggctg gaccctgcat
     1261 gataagcaca aggaagttcg cctgaagtgt gtgaaggctc tggcagggct gtacagcaac
     1321 caggagctga gcttacggat ggagctcttt acaaatcgct tcaaggaccg gatggtttcc
     1381 atggtcatgg acagagagtg tgaagtagca gtggaggcca tcagattgct gacccttatt
     1441 ctgaagaaca tggagggagt gctgactagt gcagactgtg agaaaattta ctccattgta
     1501 tacatttcta atcgtgctat ggcctcttct gcaggggaat ttgtgtattg gaagatcttc
     1561 catcctgaat gtggggcaaa agcagtgagt gatagagagc gacgccggag tccacaagcc
     1621 cagaagactt tcatttatct tttactggcc ttctttatgg agagtgagca tcacaaccat
     1681 gctgcttact tagtagacag cttgtgggac tgtgcggggt cttacctgaa ggactgggag
     1741 agtctgacaa acctgttgct gcagaaagac cagaatctgg gtgatatgca agagagaatg
     1801 ctgatagaaa tccttgtgtc tagtgcccgg caagctgcag agggtcaccc tccagtgggg
     1861 cgcatcactg gaaagaagag tctgacggcc aaagaacgca agcttcaagc ctatgataag
     1921 atgaagctgg ctgagcacct catccccctc ttgccccagc tccttgccaa gttctcagca
     1981 gatgcagaga atgttgctcc cttgctccag ctgctcagtt actttgacct cagcatatat
     2041 tgcactcagc gcttggaaaa gcacttggag ctgcttctgc aacaactcca ggaggtggtg
     2101 gtgaagcatg tagagcctga ggtgcttgag gcagcagccc atgccctcta tctgctctgc
     2161 aaaccagagt tcaccttctt cagcagagtg gactttgcca gaagccaatt agtagatttt
     2221 ctgactgata gattccagca ggagcttgat gacctaatgc agtcatcctt cctagatgag
     2281 gatgaggtat acagcctgac agccaccctg aagcgtctct ctgcctttta caatgctcat
     2341 gacctgaccc gatgggagat ctctgaacca tgttctcgac tcctccggaa ggctgtagac
     2401 acaggagaag ttcctcacca ggtgattttg ccagccttga ctctggtata tttttccatt
     2461 ctctggacag taacccacat ttcagagtct acttctcata agcagctgat gagtctgaag
     2521 aaaagaatgg tagccttctg tgagctttgc caaagctgcc tctcagacgt ggacccagag
     2581 atccaggagc aggcttttgt cttattaagt gacctgcttc tcatcttcag ccctcagatg
     2641 attgtagggg gacgggattt ccttaggcct cttgtctttt ttccggaagc tactctccag
     2701 tcggaactag ccagcttcct catggaccat gtctttctcc agcctggaga actgggcaac
     2761 ggtcagtcac aggaggatca cgtccagata gaacttctgc accagaggcg ccgcctgctt
     2821 gcaggatttt gtaagctgct gctttatggg gtattggagc tggatgcagc ctcagacgtt
     2881 ttcaaacact acaacaagtt ctatgaagac tatggtgaca ttatcaagga aacattaact
     2941 cgagcaagac aaattgacag atgtcagtgc tctcggatcc tgctcctgag cctaaagcag
     3001 ctctacacag aactgataca ggagcagggc ccccagggcc tgacagaact gccagccttc
     3061 attgagatga gagacttggc tcggaggttt gccttgagct ttggacccca gcagctccat
     3121 aaccgagatc ttgtggtcat gctgcacaag gaaggcatca agttctcatt gtctgagctt
     3181 cctcctgctg gttcttctca tgagccccca aatcttgcat tcctggagct tctttcagag
     3241 ttctcccctc gcctcttcca tcaggacaag cggctactac tatcctacct ggaaaagtgt
     3301 ctgcagcgtg tctccaaggc acctaaccat ccctggggtc cagtcaccac ctactgccac
     3361 tcccttcacc ctctagagat cacagcagag gccagccctc gtggaccccc ccactccaag
     3421 aagaggtgtg ttgaaggccc ctgcaggcct caggaagaag agtcctcatc ccaggaagaa
     3481 agccttcagc tgaacagtgg ccccacaacc cctaccctca cctccaccgc agtgaagagg
     3541 aagcagtctc tgaggacagt gggcaagaag caaaaaggta gaccaggacc aggaccagga
     3601 ccaggaccag agctgatctg cagtcagcaa ctcttaggca cccagaggtt gaagatgtcg
     3661 agtgcaccat gtttccagat tcgatgtgat ccttcaggct ctggcttggg caagcagctg
     3721 acccgactca gccttatgga agaagatgag gaagaagagc taagacttct ggatgaagaa
     3781 tggcaacgtg gagacaagat gcttcatagc ccttcttctc ccagtgagca tgggttggac
     3841 ctattagata caacagagct gaacatggag gatttctgat gggactttag gcctctcccc
     3901 ttctccactt accactgcaa gtccttgagt gagcagaagg aaggagtaaa atgaagcatt
     3961 ctttgggtcc tagccaagta ctttaaagga aaagagaaat ggccttattt ttcaaatctc
     4021 tatttctttc tgaagtgggt gctatatata gatgctatga gccttgtcat ccttaatgcg
     4081 ccatcgcttt atgcttttgc ctgtttgcag tgataggagt tgggtaggga gggctttacg
     4141 tcagcactga agtttagtaa aacttctatt tgatattttg tccccaaaca ctgccaaact
     4201 ttcaataaac atgttcagct atctcataaa aaaaaaaaaa aaaaaa
//
