LOCUS       NM_001358618            4070 bp    mRNA    linear   ROD 19-NOV-2024
DEFINITION  Mus musculus SNF2 related chromatin remodeling ATPase 1 (Smarca1),
            transcript variant 3, mRNA.
ACCESSION   NM_001358618 XM_006541563
VERSION     NM_001358618.1
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 4070)
  AUTHORS   Niri,F., Terpstra,A.N., Lim,K.R.Q. and McDermid,H.E.
  TITLE     Chromatin remodeling factor CECR2 forms tissue-specific complexes
            with CCAR2 and LUZP1
  JOURNAL   Biochem Cell Biol 99 (6), 759-765 (2021)
   PUBMED   34197713
REFERENCE   2  (bases 1 to 4070)
  AUTHORS   Alvarez-Saavedra,M., Yan,K., De Repentigny,Y., Hashem,L.E.,
            Chaudary,N., Sarwar,S., Yang,D., Ioshikhes,I., Kothary,R.,
            Hirayama,T., Yagi,T. and Picketts,D.J.
  TITLE     Snf2h Drives Chromatin Remodeling to Prime Upper Layer Cortical
            Neuron Development
  JOURNAL   Front Mol Neurosci 12, 243 (2019)
   PUBMED   31680852
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4070)
  AUTHORS   He,S., Limi,S., McGreal,R.S., Xie,Q., Brennan,L.A., Kantorow,W.L.,
            Kokavec,J., Majumdar,R., Hou,H. Jr., Edelmann,W., Liu,W.,
            Ashery-Padan,R., Zavadil,J., Kantorow,M., Skoultchi,A.I., Stopka,T.
            and Cvekl,A.
  TITLE     Chromatin remodeling enzyme Snf2h regulates embryonic lens
            differentiation and denucleation
  JOURNAL   Development 143 (11), 1937-1947 (2016)
   PUBMED   27246713
REFERENCE   4  (bases 1 to 4070)
  AUTHORS   Metzakopian,E., Bouhali,K., Alvarez-Saavedra,M., Whitsett,J.A.,
            Picketts,D.J. and Ang,S.L.
  TITLE     Genome-wide characterisation of Foxa1 binding sites reveals several
            mechanisms for regulating neuronal differentiation in midbrain
            dopamine cells
  JOURNAL   Development 142 (7), 1315-1324 (2015)
   PUBMED   25804738
REFERENCE   5  (bases 1 to 4070)
  AUTHORS   Blewitt,M.E., Gendrel,A.V., Pang,Z., Sparrow,D.B., Whitelaw,N.,
            Craig,J.M., Apedaile,A., Hilton,D.J., Dunwoodie,S.L.,
            Brockdorff,N., Kay,G.F. and Whitelaw,E.
  TITLE     SmcHD1, containing a structural-maintenance-of-chromosomes hinge
            domain, has a critical role in X inactivation
  JOURNAL   Nat Genet 40 (5), 663-669 (2008)
   PUBMED   18425126
REFERENCE   6  (bases 1 to 4070)
  AUTHORS   Lazzaro,M.A., Pepin,D., Pescador,N., Murphy,B.D., Vanderhyden,B.C.
            and Picketts,D.J.
  TITLE     The imitation switch protein SNF2L regulates steroidogenic acute
            regulatory protein expression during terminal differentiation of
            ovarian granulosa cells
  JOURNAL   Mol Endocrinol 20 (10), 2406-2417 (2006)
   PUBMED   16740656
  REMARK    GeneRIF: The imitation switch protein SNF2L regulates steroidogenic
            acute regulatory protein expression during terminal differentiation
            of ovarian granulosa cells.
REFERENCE   7  (bases 1 to 4070)
  AUTHORS   Eberharter,A. and Becker,P.B.
  TITLE     ATP-dependent nucleosome remodelling: factors and functions
  JOURNAL   J Cell Sci 117 (Pt 17), 3707-3711 (2004)
   PUBMED   15286171
  REMARK    Review article
REFERENCE   8  (bases 1 to 4070)
  AUTHORS   Barak,O., Lazzaro,M.A., Lane,W.S., Speicher,D.W., Picketts,D.J. and
            Shiekhattar,R.
  TITLE     Isolation of human NURF: a regulator of Engrailed gene expression
  JOURNAL   EMBO J 22 (22), 6089-6100 (2003)
   PUBMED   14609955
REFERENCE   9  (bases 1 to 4070)
  AUTHORS   Bozhenok,L., Wade,P.A. and Varga-Weisz,P.
  TITLE     WSTF-ISWI chromatin remodeling complex targets heterochromatic
            replication foci
  JOURNAL   EMBO J 21 (9), 2231-2241 (2002)
   PUBMED   11980720
  REMARK    Erratum:[EMBO J 2002 Jun 17;21(12):3212]
REFERENCE   10 (bases 1 to 4070)
  AUTHORS   Lazzaro,M.A. and Picketts,D.J.
  TITLE     Cloning and characterization of the murine Imitation Switch (ISWI)
            genes: differential expression patterns suggest distinct
            developmental roles for Snf2h and Snf2l
  JOURNAL   J Neurochem 77 (4), 1145-1156 (2001)
   PUBMED   11359880
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL671903.19.
            
            On Dec 6, 2017 this sequence version replaced XM_006541563.3.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            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 :: SRR1660817.134738.1,
                                           SRR1660819.44271.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##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
            1-388               AL671903.19        85334-85721         c
            389-475             AL671903.19        80220-80306         c
            476-642             AL671903.19        77145-77311         c
            643-743             AL671903.19        76684-76784         c
            744-844             AL671903.19        76456-76556         c
            845-1024            AL671903.19        72554-72733         c
            1025-1180           AL671903.19        69493-69648         c
            1181-1312           AL671903.19        68272-68403         c
            1313-1381           AL671903.19        67263-67331         c
            1382-1491           AL671903.19        54387-54496         c
            1492-1718           AL671903.19        53529-53755         c
            1719-1840           AL671903.19        51364-51485         c
            1841-1993           AL671903.19        47674-47826         c
            1994-2126           AL671903.19        45703-45835         c
            2127-2275           AL671903.19        44753-44901         c
            2276-2395           AL671903.19        43024-43143         c
            2396-2506           AL671903.19        35017-35127         c
            2507-2620           AL671903.19        34645-34758         c
            2621-2743           AL671903.19        21967-22089         c
            2744-2876           AL671903.19        19601-19733         c
            2877-2995           AL671903.19        16798-16916         c
            2996-3208           AL671903.19        16473-16685         c
            3209-3319           AL671903.19        4266-4376           c
            3320-4070           AL671903.19        2478-3228           c
FEATURES             Location/Qualifiers
     source          1..4070
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="X"
                     /map="X 25.41 cM"
     gene            1..4070
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /note="SNF2 related chromatin remodeling ATPase 1"
                     /db_xref="GeneID:93761"
                     /db_xref="MGI:MGI:1935127"
     exon            1..388
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     CDS             218..3391
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /note="isoform 3 is encoded by transcript variant 3;
                     probable global transcription activator SNF2L1;
                     DNA-dependent ATPase SNF2L; ATP-dependent helicase
                     SMARCA1; nucleosome-remodeling factor subunit SNF2L;
                     SWI/SNF related, matrix associated, actin dependent
                     regulator of chromatin, subfamily a, member 1"
                     /codon_start=1
                     /product="probable global transcription activator SNF2L1
                     isoform 3"
                     /protein_id="NP_001345547.1"
                     /db_xref="GeneID:93761"
                     /db_xref="MGI:MGI:1935127"
                     /translation="MEPDTATEAATVAVSDARATVVVVEDEQPGPSTFKEEGAAAAAT
                     EGTTATEKGEKKEKITSPFQLKLAAKASKSEKEMDPEYEEKMKADRAKRFEFLLKQTE
                     LFAHFIQPSAQKSPTSPLNMKLARPRVKKDDKQSLISVGDYRHRRTEQEEDEELLSES
                     RKTSNVCVRFEVSPSYVKGGPLRDYQIRGLNWLISLYENGVNGILADEMGLGKTLQTI
                     ALLGYLKHYRNIPGPHMVLVPKSTLHNWMNEFKRWVPSLRVICFVGDKDVRAAFIRDE
                     MMPGEWDVCVTSYEMVIKEKSVFKKFHWRYLVIDEAHRIKNEKSKLSEIVREFKSTNR
                     LLLTGTPLQNNLHELWALLNFLLPDVFNSADDFDSWFDTKNCLGDQKLVERLHAVLKP
                     FLLRRIKTDVEKSLPPKKEIKIYLGLSKMQREWYTKILMKDIDVLNSSGKMDKMRLLN
                     ILMQLRKCCNHPYLFDGAEPGPPYTTDEHIVGNSGKMVALDKLLARIKEQGSRVLIFS
                     QMTRLLDILEDYCMWRGYEYSRLDGQTPHEEREEAIDAFNAPNSSKFIFMLSTRAGGL
                     GINLASADVVILYDSDWNPQVDLQAMDRAHRIGQKKPVRVFRLITDNTVEERIVERAE
                     IKLRLDSIVIQQGRLIDQQSNKLAKEEMLQMIRHGATHVFACKESELTDEDIVTILER
                     GEKKTAEMNERMQKMGESSLRNFRMDLEQSLYKFEGEDYREKQKLGTVEWIEPPKRER
                     KANYAVDAYFREALRVSEPKIPKAPRPPKQPNVQDFQFFPPRLFELLEKEILYYRKTI
                     GYKVPRNPEIPNPAIAQREEQKKIDGAEPLTPQETEEKDKLLTQGFTNWTKRDFNQFI
                     KANEKYGRDDIDNIAREVEGKSPEEVMEYSAVFWERCNELQDIEKIMAQIERGEARIQ
                     RRISIKKALDAKIARYKAPFHQLRIQYGTSKGKNYTEEEDRFLICMLHKMGFDRENVY
                     EELRQCVRNAPQFRFDWFIKSRTAMEFQRRCNTLISLIEKENMEIEERERAEKKKRAT
                     KTPMSQKRKAESATESSGRKDVKKVKS"
     exon            389..475
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            476..642
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            643..743
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            744..844
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            845..1024
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            1025..1180
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            1181..1312
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            1313..1381
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            1382..1491
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            1492..1718
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            1719..1840
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            1841..1993
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            1994..2126
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            2127..2275
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            2276..2395
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            2396..2506
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            2507..2620
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            2621..2743
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            2744..2876
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            2877..2995
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            2996..3208
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            3209..3319
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     exon            3320..4070
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3784..3789
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /note="hexamer: ATTAAA"
     polyA_site      3807
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /note="major polyA site"
     regulatory      3959..3964
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /note="hexamer: AATAAA"
     polyA_site      3984
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
     regulatory      4045..4050
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
                     /note="hexamer: AATAAA"
     polyA_site      4067
                     /gene="Smarca1"
                     /gene_synonym="5730494M04Rik; Snf2l"
ORIGIN      
        1 ggagggcgat ggggggaggc catgacgtag ggtgggtgga cggaagtggg gcagggttga
       61 gggttattta aagaaggtgg ggggcgagcg aaggggttgg aagctagtat tctccacccc
      121 tgctctagca agctctttcc agcgcagcca ccgctgtcgc acaggaacct cccttctccc
      181 cttcctcgtc ccacctcgtc tttcccgctc caacgccatg gagccggaca cggccacaga
      241 ggcagccacc gtggcagttt cggatgccag agccacagtc gtggttgtag aggatgagca
      301 gcccgggccg tccaccttta aagaggaggg agcggctgct gccgccaccg aaggcaccac
      361 ggccactgag aagggcgaga agaaggagaa aatcacttct ccatttcaac tcaaacttgc
      421 tgctaaagct tccaaatctg aaaaggaaat ggatccagaa tatgaagaga aaatgaaagc
      481 agaccgcgca aagagatttg agtttttact gaagcagacg gaactttttg cacatttcat
      541 tcagccttca gcacagaagt ctccaacatc tcctctcaac atgaaactgg ctcgtcctcg
      601 agtaaagaaa gatgacaagc agagcttgat ttccgttgga gactatcgcc acaggcgtac
      661 agaacaagaa gaggatgagg agcttctctc agagagtagg aaaacatcga atgtgtgtgt
      721 cagattcgag gtctcccctt cctatgtgaa aggaggaccg ctgagagatt atcagatccg
      781 aggactaaac tggttgattt ctttgtatga aaatggagtc aatggtattt tagctgatga
      841 aatgggtctt gggaagactt tacaaaccat tgccttgctt ggttacctga agcactacag
      901 aaacattcct ggaccccaca tggttttagt tcccaagtct actttacata actggatgaa
      961 tgaatttaaa cgatgggttc catctctccg tgttatttgt ttcgttggag acaaagatgt
     1021 gagagcagct tttattcgtg atgaaatgat gccaggagag tgggatgttt gcgtgacttc
     1081 ttatgagatg gtaattaaag aaaaatctgt gtttaaaaag tttcactggc gatacttagt
     1141 catcgatgaa gctcacagaa taaaaaatga aaaatctaag ctttcagaga ttgttcgtga
     1201 gttcaagtca actaatcgct tacttctaac tgggacacct ttgcagaata acttgcatga
     1261 gctctgggca ttacttaatt ttttattgcc ggatgtcttt aattctgcag atgactttga
     1321 ttcttggttt gacactaaaa attgccttgg tgatcaaaag cttgtggaaa gactccatgc
     1381 agttttaaaa ccatttttgt tacgccggat aaaaaccgat gtagagaaga gtctgcctcc
     1441 taagaaggaa ataaagattt acttgggcct gagtaaaatg caacgagaat ggtatacaaa
     1501 aattctgatg aaagatattg atgtcttaaa ctcttctggc aagatggaca agatgcgact
     1561 cttgaatatt ctgatgcagc tccgaaagtg ttgtaatcat ccttatctgt ttgatggagc
     1621 agagcctggt ccaccttata cgacagatga gcacattgtc ggcaatagtg gtaaaatggt
     1681 cgctctggat aagctattgg cgagaattaa agaacaggga tcaagagttc tcatctttag
     1741 ccagatgact cgactgttag acattttgga ggattattgt atgtggcgtg gttatgagta
     1801 ttctcgactg gatggacaaa ccccacatga agaaagagag gaagcgatag atgccttcaa
     1861 tgctccaaat agcagcaaat tcatctttat gctgagtact agggctggag gactcggaat
     1921 taacttggca agtgctgatg tggtcatcct atatgattca gactggaatc cacaggttga
     1981 tttacaagct atggatcggg cacatcgcat tggtcagaag aagccagtac gagtcttccg
     2041 tctcattaca gacaacacag tggaagagag gattgtagaa agagctgaga taaaactgag
     2101 acttgattca attgttatac agcaaggaag actcattgac caacaatcta acaagctggc
     2161 aaaagaggaa atgctacaaa tgatccgtca tggagctaca catgtttttg cctgtaaaga
     2221 aagtgagctg acagatgagg acattgtaac tattctggaa agaggagaaa agaagactgc
     2281 agagatgaat gaacgcatgc agaaaatggg agagtcatct ctaagaaatt ttagaatgga
     2341 ccttgaacaa agtttgtaca agtttgaagg agaagattac agagaaaaac aaaagctggg
     2401 tacagtggaa tggattgaac ctcctaaacg agaacgcaaa gccaactatg cagtggatgc
     2461 ctactttaga gaggctttac gtgtcagcga gccaaagatc ccaaaggctc ctcggcctcc
     2521 aaaacagcca aatgttcaag attttcaatt ttttccaccg cgcttatttg agctcctgga
     2581 aaaggaaatt ctttattatc ggaagactat aggttacaag gtcccaagaa atcctgagat
     2641 ccccaaccca gctatagctc aaagagaaga gcaaaaaaag attgatggag cggaacctct
     2701 tacaccacaa gagactgaag agaaggataa acttctcaca caaggtttca caaactggac
     2761 taagcgagat tttaaccagt ttattaaagc taatgagaag tatgggagag atgacattga
     2821 taatatagct cgagaggtgg agggcaagtc ccctgaggag gtcatggagt attcagctgt
     2881 attttgggaa cgctgcaatg aattacagga cattgagaaa attatggctc aaattgaacg
     2941 tggagaagca agaattcagc gaaggatcag tattaagaaa gcactggatg ccaaaattgc
     3001 aagatacaag gctccatttc atcagttgcg tattcagtat ggaaccagta aaggaaagaa
     3061 ctatactgaa gaggaagaca gattcttgat ctgtatgtta cacaaaatgg gttttgacag
     3121 agaaaatgta tatgaagaat taaggcagtg tgtacggaat gctccccagt ttagatttga
     3181 ctggttcatc aagtcgagaa ctgccatgga atttcagaga cgctgtaata ctttgatttc
     3241 attgattgaa aaagaaaata tggaaattga ggaaagagag agagcagaaa agaagaaacg
     3301 ggcaactaaa actccaatgt cacagaaaag aaaagcagag tcagctactg agagctctgg
     3361 aaggaaggat gtcaagaagg tgaaatccta aagcctagaa ataaagtttt aaatgggaaa
     3421 ctgctatttt cttgtcccca tcttcaaatg ctaattacta cttccagtgt attcatggta
     3481 ctctaaggaa aaaaaaaagg aatactcttt ggttttgatt tcttgcatat tttatatatt
     3541 ttacaatgct ttctacctga aatgtgtagc tttctatttt atgcattcta gtattttctg
     3601 tactgtattt tgtgcatttc atgtcttcat caaattcctc tcagtccttg tttttttgaa
     3661 gcttgtgctg aggttttagc ttttctatgt tttctatgcc gctgctttga aagagaacct
     3721 agattctata gctgtattat tgttgtttca gactttacat ttatatggct gtggacaaaa
     3781 tgaattaaaa cgatttgagg agaaagactt tctcacttct ttgttgcttt cttttctatg
     3841 gagtctgggt ttgtgtgtgt gtaactgcat actgtgatta gcataatcat tgtttctttg
     3901 aggtcatcta catacttttt cctaaggaaa taaagggtaa gaaagaaaaa atcttaaaaa
     3961 taaaccctaa tatttgatac tgtgtttgct gtcagtgtgc gttacattta aattattctc
     4021 taaatattca agtgggaaaa atataataaa ggactgtcta taagaaatat
//
