LOCUS       NM_009122               6228 bp    mRNA    linear   ROD 14-JAN-2025
DEFINITION  Mus musculus special AT-rich sequence binding protein 1 (Satb1),
            transcript variant 2, mRNA.
ACCESSION   NM_009122
VERSION     NM_009122.2
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 6228)
  AUTHORS   Wutikeli,H., Yu,Y., Zhang,T., Cao,J., Nawy,S. and Shen,Y.
  TITLE     Role of Elavl-like RNA-binding protein in retinal development and
            signal transduction
  JOURNAL   Biochim Biophys Acta Mol Basis Dis 1871 (1), 167518 (2025)
   PUBMED   39307290
REFERENCE   2  (bases 1 to 6228)
  AUTHORS   Yamashita,M., Ogawa,C., Zhang,B., Kobayashi,T., Nomura,A.,
            Barker,C., Zou,C., Yamanaka,S., Hayashi,K.I., Shinkai,Y., Moro,K.,
            Fargarasan,S., Imami,K., Seita,J., Shirai,F., Sawasaki,T.,
            Kanemaki,M.T. and Taniuchi,I.
  TITLE     Cell-type specific, inducible and acute degradation of targeted
            protein in mice by two degron systems
  JOURNAL   Nat Commun 15 (1), 10129 (2024)
   PUBMED   39613744
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 6228)
  AUTHORS   Fan,W., Li,Z., He,X., Wang,X., Sun,M. and Yang,Z.
  TITLE     SLC25A1 regulates placental development to ensure embryonic heart
            morphogenesis
  JOURNAL   Development 151 (22) (2024)
   PUBMED   39591637
REFERENCE   4  (bases 1 to 6228)
  AUTHORS   Wang,B. and Bian,Q.
  TITLE     SATB1 prevents immune cell infiltration by regulating chromatin
            organization and gene expression of a chemokine gene cluster in T
            cells
  JOURNAL   Commun Biol 7 (1), 1304 (2024)
   PUBMED   39394451
  REMARK    GeneRIF: SATB1 prevents immune cell infiltration by regulating
            chromatin organization and gene expression of a chemokine gene
            cluster in T cells.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 6228)
  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   6  (bases 1 to 6228)
  AUTHORS   Seo,J., Lozano,M.M. and Dudley,J.P.
  TITLE     Nuclear matrix binding regulates SATB1-mediated transcriptional
            repression
  JOURNAL   J Biol Chem 280 (26), 24600-24609 (2005)
   PUBMED   15851481
  REMARK    GeneRIF: SATB1-mediated transcriptional repression is regulated by
            nuclear matrix binding
REFERENCE   7  (bases 1 to 6228)
  AUTHORS   Nie,H., Maika,S.D., Tucker,P.W. and Gottlieb,P.D.
  TITLE     A role for SATB1, a nuclear matrix association region-binding
            protein, in the development of CD8SP thymocytes and peripheral T
            lymphocytes
  JOURNAL   J Immunol 174 (8), 4745-4752 (2005)
   PUBMED   15814699
  REMARK    GeneRIF: essential role for SATB1 late in the development and
            maturation of CD8SP T cells
REFERENCE   8  (bases 1 to 6228)
  AUTHORS   Cai,S., Han,H.J. and Kohwi-Shigematsu,T.
  TITLE     Tissue-specific nuclear architecture and gene expression regulated
            by SATB1
  JOURNAL   Nat Genet 34 (1), 42-51 (2003)
   PUBMED   12692553
  REMARK    GeneRIF: in thymocyte nuclei, SATB1 has a cage-like 'network'
            distribution circumscribing heterochromatin and selectively tethers
            specialized DNA sequences onto its network
REFERENCE   9  (bases 1 to 6228)
  AUTHORS   Alvarez,J.D., Yasui,D.H., Niida,H., Joh,T., Loh,D.Y. and
            Kohwi-Shigematsu,T.
  TITLE     The MAR-binding protein SATB1 orchestrates temporal and spatial
            expression of multiple genes during T-cell development
  JOURNAL   Genes Dev 14 (5), 521-535 (2000)
   PUBMED   10716941
REFERENCE   10 (bases 1 to 6228)
  AUTHORS   Nakagomi,K., Kohwi,Y., Dickinson,L.A. and Kohwi-Shigematsu,T.
  TITLE     A novel DNA-binding motif in the nuclear matrix attachment
            DNA-binding protein SATB1
  JOURNAL   Mol Cell Biol 14 (3), 1852-1860 (1994)
   PUBMED   8114718
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK037740.1, AK134040.1, AK081385.1, AC131975.28 and AW045567.1.
            
            On Jul 29, 2009 this sequence version replaced NM_009122.1.
            
            Transcript Variant: This variant (2) differs in the 5' UTR compared
            to variant 1. Variants 1-4 encode the same protein.
            
            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 :: AK037740.1, U05252.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164139 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-21                AK037740.1         1-21
            22-1647             AK134040.1         2-1627
            1648-3150           AK037740.1         1649-3151
            3151-3502           AK037740.1         3153-3504
            3503-3861           AK081385.1         506-864
            3862-3862           AC131975.28        23079-23079
            3863-5010           AK081385.1         866-2013
            5011-5601           AK081385.1         2015-2605
            5602-5607           AK081385.1         2607-2612
            5608-5808           AK081385.1         2614-2814
            5809-6228           AW045567.1         7-426               c
FEATURES             Location/Qualifiers
     source          1..6228
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 26.81 cM"
     gene            1..6228
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /note="special AT-rich sequence binding protein 1"
                     /db_xref="GeneID:20230"
                     /db_xref="MGI:MGI:105084"
     exon            1..178
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            179..423
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     CDS             213..2507
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /note="isoform 1 is encoded by transcript variant 2;
                     DNA-binding protein Satb1"
                     /codon_start=1
                     /product="DNA-binding protein SATB1 isoform 1"
                     /protein_id="NP_033148.2"
                     /db_xref="CCDS:CCDS28876.1"
                     /db_xref="GeneID:20230"
                     /db_xref="MGI:MGI:105084"
                     /translation="MDHLNEATQGKEHSEMSNNVSDPKGPPAKIARLEQNGSPLGRGR
                     LGSTGGKMQGVPLKHSGHLMKTNLRKGTMLPVFCVVEHYENAIEYDCKEEHAEFVLVR
                     KDMLFNQLIEMALLSLGYSHSSAAQAKGLIQVGKWNPVPLSYVTDAPDATVADMLQDV
                     YHVVTLKIQLHSCPKLEDLPPEQWSHTTVRNALKDLLKDMNQSSLAKECPLSQSMISS
                     IVNSTYYANVSAAKCQEFGRWYKHFKKTKDMMVEMDSLSELSQQGANHVNFGQQPVPG
                     NTAEQPPSPAQLSHGSQPSVRTPLPNLHPGLVSTPISPQLVNQQLVMAQLLNQQYAVN
                     RLLAQQSLNQQYLNHPPPVSRSMNKPLEQQVSTNTEVSSEIYQWVRDELKRAGISQAV
                     FARVAFNRTQGLLSEILRKEEDPKTASQSLLVNLRAMQNFLQLPEAERDRIYQDERER
                     SLNAASAMGPAPLLSTPPSRPPQVKTATLATERNGKPENNTMNINASIYDEIQQEMKR
                     AKVSQALFAKVAATKSQGWLCELLRWKEDPSPENRTLWENLSMIRRFLSLPQPERDAI
                     YEQESNAVHHHGDRPPHIIHVPAEQIQQQQQQQQQQQQQQQPPPPPPQPQPQPQAGPR
                     LPPRQPTVASSAESDEENRQKTRPRTKISVEALGILQSFIQDVGLYPDEEAIQTLSAQ
                     LDLPKYTIIKFFQNQRYYLKHHGKLKDNSGLEVDVAEYKDEELLKDLEESVQDKNANT
                     LFSVKLEEELSVEGSTDVNADLKD"
     exon            424..600
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            601..727
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            728..851
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            852..963
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            964..1418
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1419..1631
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1632..1787
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1788..1991
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     exon            1992..6218
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3725..3730
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /note="hexamer: ATTAAA"
     polyA_site      3748
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /note="major polyA site"
     regulatory      5794..5799
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /note="hexamer: AATAAA"
     polyA_site      5813
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
     regulatory      6183..6188
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
                     /note="hexamer: AATAAA"
     polyA_site      6213
                     /gene="Satb1"
                     /gene_synonym="2610306G12Rik"
ORIGIN      
        1 gagacaactt gaagtcaagt tgccattaac ttccgcggcg gccgccagct cggcggcggg
       61 gaggtggcag cagctgcagc cgccgcccgg gaagtccgcc gcccggcgcg cccgcgcggg
      121 gagccgaccc ggcctcggcc cgcaccgctg gcccgcgctg tcccggttcc acgcctgatt
      181 ctggcaggtg atctgtaaga cagtgactga gtatggatca tttgaacgag gcaactcagg
      241 ggaaagaaca ttcagaaatg tctaacaatg tgagtgatcc gaagggtcca cccgccaaga
      301 ttgcccgcct ggagcagaac gggagccctc taggaagagg aaggcttggg agcacaggtg
      361 gaaagatgca gggagtgcct ttaaaacact cgggccatct catgaaaacc aaccttagga
      421 aaggaaccat gttaccagtt ttctgcgtgg tggaacatta tgaaaacgcc attgagtatg
      481 attgcaagga ggagcacgcg gaatttgtat tggtgagaaa ggatatgctt ttcaaccagc
      541 tgatagagat ggcgttgctg tctctaggct attcacacag ctctgctgcc caagccaaag
      601 ggctcatcca ggttgggaag tggaatccag ttccactgtc gtatgtgaca gatgcccctg
      661 atgccacggt ggcagacatg cttcaagatg tgtatcatgt ggtcaccctc aaaattcagt
      721 tacacagttg ccctaaacta gaagacttgc ctcctgaaca atggtcgcac accacagtaa
      781 ggaatgctct gaaggactta ctgaaagata tgaaccagag ttcgttggcc aaggagtgcc
      841 ccctttcaca gagcatgatc tcctccattg tgaacagcac gtactatgca aatgtctcag
      901 cagcaaaatg tcaagaattt ggaaggtggt acaaacattt caagaagaca aaggatatga
      961 tggttgagat ggatagtctg tctgaactat cccagcaagg tgccaaccac gtcaattttg
     1021 gccagcagcc tgtcccagga aacacagctg agcagcctcc atcccctgcg cagctctctc
     1081 acggcagtca gccctctgtc cggacccctc ttccgaacct gcaccctggg cttgtgtcaa
     1141 caccgatcag tcctcagctg gtcaaccaac agctggtgat ggctcagttg ctgaaccagc
     1201 agtatgcagt gaacagactc ttagcccagc agtccttaaa ccaacagtac ttgaaccacc
     1261 ctccccctgt cagtaggtct atgaacaagc ctttggagca gcaagtttcc acaaacacgg
     1321 aggtctcttc tgaaatctac cagtgggtgc gggatgaact gaaacgagcc ggaatctcac
     1381 aggcagtatt tgcacgcgtg gcttttaacc gaactcaggg attgctttct gaaatcctcc
     1441 gaaaggaaga ggaccccaag actgcatccc agtctctgct ggtaaacctt cgggctatgc
     1501 agaatttctt acagttgccg gaagccgaaa gagaccggat ataccaggat gagagggaaa
     1561 ggagcttgaa cgcagcctca gccatgggtc ctgccccgct gctgagcaca ccacccagcc
     1621 gccctcccca ggtgaaaaca gctacccttg ccactgagag aaatgggaag ccagagaaca
     1681 atactatgaa cattaatgcc tccatttatg atgagattca gcaggaaatg aagcgtgcta
     1741 aagtgtccca agcactgttt gcaaaggttg ccgccacaaa aagccaggga tggctgtgtg
     1801 agctgttgcg ctggaaagaa gatccttctc cagaaaacag gaccctgtgg gagaacctgt
     1861 cgatgatccg aagattcctc agtctgcctc agcctgagcg cgatgccatc tatgagcagg
     1921 agagcaatgc tgtgcatcac catggcgaca gacctcccca catcatccac gttccagcag
     1981 aacagattca gcagcagcaa cagcagcagc agcaacagca gcagcagcag cagccaccgc
     2041 cgccaccgcc gcagccacag ccacagcccc aggcaggccc cagactcccc ccacggcagc
     2101 ccaccgtggc ctcctccgcg gagtccgatg aggaaaaccg gcagaagacc aggccacgaa
     2161 ccaaaatttc cgtggaagcc ctggggatcc ttcagagttt catccaagat gtgggcctgt
     2221 acccagatga agaggctatc cagactctgt ctgcacagct ggacctcccg aagtacacca
     2281 tcatcaagtt ctttcagaac cagcggtact accttaagca ccatggcaag ctgaaggaca
     2341 actccggctt ggaggtggat gtggccgagt acaaagatga ggagttgctt aaggatttgg
     2401 aagagagcgt ccaggataaa aacgccaaca cccttttctc agtgaaacta gaggaagagc
     2461 tgtcggtgga agggagcaca gacgttaatg ccgacttgaa agactgagag aacagtattc
     2521 ttttcagcca caccaccggt atttcctaac aacatgagaa gtccaccttg tgttcactca
     2581 gacaaacctt cattgtttat tgtttggcca atgaatcttc ggaaacttgc acaaacagga
     2641 aggaagttgg aaggacagga cagccagcac tcaaggtttt actgtgtttt acaaaactgc
     2701 ttggcagccc cgggtgaagc gtcaaggact gtttggtaga atttgtgttc aagggctgca
     2761 cccaggtgtt gtaccctgtc agcatgatac cagaaattgg ttttcctttt gattattatt
     2821 attctggagc ctcaaataag cattataact tctgtggtta tgattgcctt ttctttagta
     2881 attcttctgt aacccgccac actagtcttt ggaaactggc cccttatttt aaagagaaaa
     2941 agaaaaaaaa aaagagagag agagagtttg ttactcgatt gtatgttaaa aaaaagaact
     3001 atagactgtg gaatgcagtt taaagatgac atatgccaac aaatgccttg tattgtatgg
     3061 cactgccgta attaaaattt gtttttttat tttggaaata aaagttcact gtaatttttt
     3121 tcatcctcat tattacatga tttttttttt aaggaaaaga aaatgtgaaa cacaatttag
     3181 tccttgttat ttatttgtag ctcctgcagc atcatgtcat aattaagttt tttggagatt
     3241 tctgttaaat gtaatgttgc tttcccatcc tgatttcctt tctatttata actgtatttt
     3301 gatgggcagt aaaacaaagt gtcttaaaag ttttaaatag agaaaaatgt gctttacaca
     3361 gttgcctata aaaagtctat gttatccaag caattcactc tagaagcttc ggtctcgttg
     3421 ttgtatgcaa tttttactat catgcaaata agcttaggta aataaaacta atagatcacc
     3481 ttagaaaatt atgcaattaa tgtgaaaata attgatgttt gcaatgtgtc ttcctttggt
     3541 ttacaatcaa ttttaaagcg acatctgtat aaagtttctg tataaaggtg tatttctttt
     3601 ttatgagttt atggctatga aaacaccagc tattttgtta cagctgctgt ttttataagt
     3661 gtatcacagt tttctttatg cagaaatgtg ctgattagga gtggttattg actgtaagta
     3721 cacgattaaa attgtttgta tggtatgaca tggcagggtt tgtctgctta tgtgaagtaa
     3781 cttgagccag gctcaaggac ggctgtcatg taggtgcatg ctcacgcttt cttggtgata
     3841 gcttgtgggt tctgaaaagc aactgaacac tccctgagat actcaattca agctacacat
     3901 atgctcagtt ttcaatagtt atggaattcc acaatgcaga tgataatctg cttttgctta
     3961 ttacaccaga cagtcaaaga ctccagcaga aatattactg tagcagttaa gtacttgaga
     4021 tggccatatc tgctttttct gtacaatcct ccagttaggg caatattttc ttcaagctag
     4081 ggtacatttt ttttaaaagc catcaatagc agcatgaaca agggaacgca tgggccttcc
     4141 gtgcgagaat cctttgcagg aaacagttta ggggaggggc ttgtttgctg gtgatttgtt
     4201 ttacaagtca taggtaggca aggtgaacat ggactgcctt tgtcaaaact gagaaccaca
     4261 tgaagatagt aggaggcaga gccctggact ccaagtctaa actgctgcat catggcccag
     4321 gctggtgtgc tgtggctggc tccagagaaa ctttcgtagg ctgtgttttt ctgtcttttg
     4381 tatccctttg ttagggttcc cgtgttgatg gggatattta ggtttgtgga gccaggctct
     4441 gtagctactg tcttccgggg gagcatttcc tcaggcctgg gcagctccat tctggtggct
     4501 gcagggcttt cctggtggtc taaatgggct ccttgaaaac tccactgagg gatttacttc
     4561 gaagcacagc tgagcacctt ggaaggctgc tgttctgctg caaactaatt tctgattctt
     4621 aagtgagaga gaaaacaatg caaactttct tgttcgctgg agttgagcaa agtaattact
     4681 tgagccaaag gcatttgaac ggagataatg caagctaatt ttaaatgtta aaaacaacaa
     4741 caacaacaaa acccccaaaa caagtaacat gctgctaacc acagattatc atctgtggcc
     4801 tccttttccc agatttaaga atggatggag catcatgtag aattgatgcc ttttttattt
     4861 aaaacagccc aacacttaag atatcagata ggtgtaaaat tcaatagtta tttagaagga
     4921 ggaagatttt tcctgttcct aacagtctga gttattttga attgatgtat ccaaggaaat
     4981 gagtgtgttg gaaagcaaca ccattgtgcc agcaaaatta tcagattttt aaaatttcag
     5041 gtcagcatgg ttttgttact ttagaataaa gcacatgttt gcaagccacg atggtcacaa
     5101 tggagtgggc aaaactgttg aagacagcgt atttcagaag atttccccta gtgatccaca
     5161 ttgtccccag ctcccaacgt cattgtcacc catgtgtctc tggttgccta tggctgttgg
     5221 taaaattcct ttaacaagct tcattgtgtc ccagcgtttc ggctgggcat gacatagtgc
     5281 tttgtgctgt tagaacctta gcagagtcag gtaatttccg ggtagtagtc agttgtgtgc
     5341 atctgagtct gtcatagcat cctacactca gcactttgcc actaatttgt attacactct
     5401 gtggccatat aatacctgca cattatgcaa aaaatgttgt tgacagtatc ttcttgccac
     5461 acaatatgca gagttgacac ataacctttg aaaacaaagg tgactagtat gtgtgcccta
     5521 cctgtgtggc acttagtaac aaagtctgta catatgtata aaatgcgtat tgactggcat
     5581 ttagtactat gaaattctga gcttaagcgt ctgcccctag tagtatctat agttaacaat
     5641 gcatattgaa aatacatagc ttaaataaaa aaaaatttaa atggttcaga agtgattgga
     5701 aatgagtgtc ccacacctgc tattattaaa ttcttccctg gtcccagttg ttcacatttg
     5761 gctaacaagg tccttgattg tcacagtatt ttcaataaat gagctattat gaactgcctg
     5821 gtgatatttt cagcaagagc aactaaaatg tgtatggcct gtgctatata gccatggagg
     5881 agatgggact gtgctaaagc cagccagaaa tgtggatggc agtgtgggaa cccagcagct
     5941 ccatagccat caaaaaacgg tcatagaaag aagtctctca agggcctatt cttggattca
     6001 gtgttccctc agaagcaatc ctttaaatgt aaatagtgaa tacttgcatg tctttggaca
     6061 aaagctgagc tacaatctat taaaatgcac aatttttgat aaaatataaa gtgccctcta
     6121 acaaaatgtg gtggaaggtg tgtgttaaga atactatacc tgtttaacaa taccatatgc
     6181 taaataaaaa tagtttggaa ttaatgttta aaacatgaaa aaaaaaaa
//
