LOCUS       NM_001278041            3336 bp    mRNA    linear   ROD 14-JUN-2024
DEFINITION  Mus musculus chordin (Chrd), transcript variant 2, mRNA.
ACCESSION   NM_001278041
VERSION     NM_001278041.2
KEYWORDS    RefSeq.
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 3336)
  AUTHORS   Escuin,S., Rose Raza-Knight,S., Savery,D., Gaston-Massuet,C.,
            Galea,G.L., Greene,N.D.E. and Copp,A.J.
  TITLE     Dual mechanism underlying failure of neural tube closure in the
            Zic2 mutant mouse
  JOURNAL   Dis Model Mech 16 (3) (2023)
   PUBMED   36916392
REFERENCE   2  (bases 1 to 3336)
  AUTHORS   Kim,J., Muraoka,M., Okada,H., Toyoda,A., Ajima,R. and Saga,Y.
  TITLE     The RNA helicase DDX6 controls early mouse embryogenesis by
            repressing aberrant inhibition of BMP signaling through
            miRNA-mediated gene silencing
  JOURNAL   PLoS Genet 18 (10), e1009967 (2022)
   PUBMED   36197846
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3336)
  AUTHORS   Dennison,B.J.C., Larson,E.D., Fu,R., Mo,J. and Fantauzzo,K.A.
  TITLE     Srsf3 mediates alternative RNA splicing downstream of PDGFRalpha
            signaling in the facial mesenchyme
  JOURNAL   Development 148 (14) (2021)
   PUBMED   34184034
REFERENCE   4  (bases 1 to 3336)
  AUTHORS   Wang,C.N., Gong,S.N., Guan,W., Wang,J.L., Gao,T.T., Wang,Y., Sun,F.
            and Jiang,B.
  TITLE     Hippocampal overexpression of chordin protects against the chronic
            social defeat stress-induced depressive-like effects in mice
  JOURNAL   Brain Res Bull 158, 31-39 (2020)
   PUBMED   32105677
  REMARK    GeneRIF: Hippocampal overexpression of chordin protects against the
            chronic social defeat stress-induced depressive-like effects in
            mice.
REFERENCE   5  (bases 1 to 3336)
  AUTHORS   Mzoughi,S., Di Tullio,F., Low,D.H.P., Motofeanu,C.M., Ong,S.L.M.,
            Wollmann,H., Wun,C.M., Kruszka,P., Muenke,M., Hildebrandt,F.,
            Dunn,N.R., Messerschmidt,D.M. and Guccione,E.
  TITLE     PRDM15 loss of function links NOTCH and WNT/PCP signaling to
            patterning defects in holoprosencephaly
  JOURNAL   Sci Adv 6 (2), eaax9852 (2020)
   PUBMED   31950080
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3336)
  AUTHORS   Clark,T.G., Conway,S.J., Scott,I.C., Labosky,P.A., Winnier,G.,
            Bundy,J., Hogan,B.L. and Greenspan,D.S.
  TITLE     The mammalian Tolloid-like 1 gene, Tll1, is necessary for normal
            septation and positioning of the heart
  JOURNAL   Development 126 (12), 2631-2642 (1999)
   PUBMED   10331975
REFERENCE   7  (bases 1 to 3336)
  AUTHORS   Pappano,W.N., Scott,I.C., Clark,T.G., Eddy,R.L., Shows,T.B. and
            Greenspan,D.S.
  TITLE     Coding sequence and expression patterns of mouse chordin and
            mapping of the cognate mouse chrd and human CHRD genes
  JOURNAL   Genomics 52 (2), 236-239 (1998)
   PUBMED   9782094
REFERENCE   8  (bases 1 to 3336)
  AUTHORS   Treier,M., Gleiberman,A.S., O'Connell,S.M., Szeto,D.P.,
            McMahon,J.A., McMahon,A.P. and Rosenfeld,M.G.
  TITLE     Multistep signaling requirements for pituitary organogenesis in
            vivo
  JOURNAL   Genes Dev 12 (11), 1691-1704 (1998)
   PUBMED   9620855
REFERENCE   9  (bases 1 to 3336)
  AUTHORS   Shawlot,W., Deng,J.M. and Behringer,R.R.
  TITLE     Expression of the mouse cerberus-related gene, Cerr1, suggests a
            role in anterior neural induction and somitogenesis
  JOURNAL   Proc Natl Acad Sci U S A 95 (11), 6198-6203 (1998)
   PUBMED   9600941
REFERENCE   10 (bases 1 to 3336)
  AUTHORS   Rhinn,M., Dierich,A., Shawlot,W., Behringer,R.R., Le Meur,M. and
            Ang,S.L.
  TITLE     Sequential roles for Otx2 in visceral endoderm and neuroectoderm
            for forebrain and midbrain induction and specification
  JOURNAL   Development 125 (5), 845-856 (1998)
   PUBMED   9449667
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CT010490.10.
            
            On Feb 16, 2023 this sequence version replaced NM_001278041.1.
            
            Transcript Variant: This variant (2) uses an alternate in-frame
            acceptor splice site in the 5' coding region compared to variant 1,
            which results in a longer isoform (2) containing an internal
            protein segment not found in isoform 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 :: BC145696.1, SRR17784649.824024.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-166               CT010490.10        78370-78535
            167-336             CT010490.10        78705-78874
            337-466             CT010490.10        79247-79376
            467-595             CT010490.10        79513-79641
            596-695             CT010490.10        79727-79826
            696-783             CT010490.10        79926-80013
            784-925             CT010490.10        80357-80498
            926-1054            CT010490.10        80611-80739
            1055-1137           CT010490.10        80821-80903
            1138-1285           CT010490.10        80986-81133
            1286-1392           CT010490.10        81277-81383
            1393-1512           CT010490.10        81504-81623
            1513-1669           CT010490.10        82149-82305
            1670-1890           CT010490.10        82582-82802
            1891-2004           CT010490.10        83434-83547
            2005-2268           CT010490.10        83793-84056
            2269-2362           CT010490.10        84144-84237
            2363-2416           CT010490.10        84351-84404
            2417-2520           CT010490.10        84647-84750
            2521-2623           CT010490.10        85194-85296
            2624-2778           CT010490.10        86430-86584
            2779-2878           CT010490.10        86736-86835
            2879-3336           CT010490.10        87165-87622
FEATURES             Location/Qualifiers
     source          1..3336
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="16"
                     /map="16 12.51 cM"
     gene            1..3336
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /note="chordin"
                     /db_xref="GeneID:12667"
                     /db_xref="MGI:MGI:1313268"
     exon            1..166
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     CDS             19..2931
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /note="isoform 2 precursor is encoded by transcript
                     variant 2"
                     /codon_start=1
                     /product="chordin isoform 2 precursor"
                     /protein_id="NP_001264970.1"
                     /db_xref="CCDS:CCDS88902.1"
                     /db_xref="GeneID:12667"
                     /db_xref="MGI:MGI:1313268"
                     /translation="MPSLPAPPAPRLLLGLLLLGSRPASGTGPEPPALPIRSEKEPLP
                     VRGAAEPGAGITARATGQRPPAKPVPAGCSFGGKVYALDETWHPDLGEPFGVMRCVLC
                     ACEAPQWARRGRGPGRVSCKNIKPQCPTLACRQPRQLPGHCCQTCPQERSNLDPQPAG
                     LVFEYPRDPEHRSYSDRGEPGVGERTRADGHTDFVALLTGPRSQAVARARVSLLRSSL
                     RFSVSYQRLDRPSRVRFTDPTGNILFEHPATPTQDGLVCGVWRAVPRLSVRLLRAEQL
                     RVALVTSTHPSGEVWGPLIWQGALAAETFSAILTLEDPLQRGVGGIALLTLSDTEDSL
                     HFLLLFRGLLGGLAQAPLKLQILHQGQLLRELQANTSAQEPGFAEVLPSLTDQEMDWL
                     ELGELQMVLEKAGGPELRISGYITTRQSCDVLQSVLCGADALIPVQTGAAGSASFILL
                     GNGSLIYQVQVVGTGSEVVAMTLETKPQRKNQRTVLCHMAGLQPGGHMAVGMCSGLGA
                     RGAHMLLQNELFLNVGTKDFPDGELRGHVTALCYSGHSARYDRLPVPLAGALVLPPVR
                     SQAAGHAWLSLDTHCHLHYEVLLAGLGGSEQGTVTAHLLGPPGMPGPQRLLKGFYGSE
                     AQGVVKDLEPVLLRHLAQGTASLLITTKSSPRGELRGQVHIASQCEAGGLRLASEGVQ
                     MPLAPNGEAATSPMLPAGPGPEAPVPAKHGSPGRPRDPNTCFFEGQQRPHGARWAPNY
                     DPLCSLCICQRRTVICDPVVCPPPSCPHPVQALDQCCPVCPEKQRSRDLPSLPNLEPG
                     EGCYFDGDRSWRAAGTRWHPVVPPFGLIKCAVCTCKGATGEVHCEKVQCPRLACAQPV
                     RANPTDCCKQCPVGSGTNAKLGDPMQADGPRGCRFAGQWFPENQSWHPSVPPFGEMSC
                     ITCRCGAGVPHCERDDCSPPLSCGSGKESRCCSHCTAQRSSETRTLPELEKEAEHS"
     exon            167..336
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            337..466
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            467..595
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            596..695
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            696..783
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            784..925
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            926..1054
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            1055..1137
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            1138..1285
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            1286..1392
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            1393..1512
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            1513..1669
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            1670..1890
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            1891..2004
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            2005..2268
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            2269..2362
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            2363..2416
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            2417..2520
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            2521..2623
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            2624..2778
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            2779..2878
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     exon            2879..3336
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3314..3319
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /note="hexamer: ATTAAA"
     polyA_site      3336
                     /gene="Chrd"
                     /gene_synonym="Chd"
                     /note="major polyA site"
ORIGIN      
        1 agctgtctgc tccgcgtcat gccgagcctc ccggccccgc cggccccgcg gctgctcctc
       61 gggctgctgc tgctcggctc gcggccggcc agtggcactg gccctgagcc cccagcactg
      121 cccatccgtt ccgagaagga gccgctgcct gtccggggag cggcagagcc cggagcaggc
      181 attacggcac gagcaaccgg acagcggccg ccagccaagc ccgtccccgc aggctgctcc
      241 ttcggcggga aggtctatgc cttggacgag acgtggcacc cggacctggg ggagcctttt
      301 ggggtgatgc gctgcgtgct gtgcgcctgt gaagcgcctc agtgggctcg ccgtgggagg
      361 ggtcctggca gggtcagctg caagaacatc aaacctcagt gccccaccct ggcctgcagg
      421 cagccgcgcc agctgccagg acactgctgc cagacctgcc cgcaggagcg cagcaatcta
      481 gatccacagc ccgctggcct ggtcttcgag tatccaaggg atccagagca tcgcagttac
      541 agtgatcgag gggaacccgg cgttggggag cggacccgtg ctgatggcca cacagacttt
      601 gtggcgctgc tgacaggacc gaggtcgcag gcggtagctc gtgctcgagt ctctttgctg
      661 cgctcaagtt tacgcttctc tgtctcctac cagcggctgg accgtcccag cagggttcgt
      721 ttcacagatc ccacaggcaa catcctgttt gaacaccctg caacccccac ccaggatggc
      781 ctggtctgtg gggtgtggcg ggcagtgcct cggctgtctg tgaggctcct gagggcagag
      841 cagcttcggg tagcccttgt gacatccact cacccttcag gagaagtctg ggggcctctc
      901 atttggcagg gtgctctcgc tgcagagacc ttcagtgcca tcctgaccct ggaagaccca
      961 ctgcagcggg gtgtgggggg catagccctg ctcaccctca gtgacacaga agattccttg
     1021 cattttttgc tgctcttccg gggtctgctg ggaggactag ctcaggctcc cttgaagctt
     1081 cagattctcc accagggaca gctacttcgg gagctccagg ccaacacctc cgctcaggag
     1141 ccaggttttg ctgaggtgct gcccagcctt acagaccaag agatggactg gttggagctg
     1201 ggggagctgc agatggtcct agagaaggcg ggtgggccag agctacgcat cagtggatac
     1261 atcaccacca ggcagagctg tgatgtcctt caaagtgtcc tttgtggggc tgatgccctg
     1321 atcccagtcc agacgggtgc tgctgggtca gccagcttca tattgctagg aaatggctcc
     1381 cttatctatc aggtgcaagt ggtaggtaca ggtagcgagg tggtggccat gacactggag
     1441 accaagcctc agcggaagaa ccagcgcact gtcctgtgcc acatggctgg actccagccg
     1501 ggaggacaca tggctgtggg tatgtgctct gggctgggtg cccgaggggc tcatatgctg
     1561 ctacagaacg agctgttcct gaatgttggt accaaggact tcccagatgg agagcttcgg
     1621 gggcatgtga ctgccctatg ctacagtggg cacagtgccc gctatgacag attgcctgtg
     1681 cctctggcag gggcactagt gctgccccct gtgcggagtc aggcagcagg gcacgcctgg
     1741 ctctccttgg atacacattg tcacttacac tatgaagttc tattggctgg gcttggtggc
     1801 tcagagcaag gaactgtcac tgcccacctc cttgggcctc ctgggatgcc agggccccag
     1861 cggctgctga agggattcta tggctcagag gctcagggcg tggtaaaaga tctggagcct
     1921 gtgctgctgc ggcacctggc acagggcact gcctccctgc tcatcaccac caagagtagc
     1981 cccagaggag aactacgtgg gcaggtgcac attgccagtc agtgtgaggc gggaggcctg
     2041 cgtctggcct cagaaggagt gcagatgccc ttggctccaa atggagaggc ggctacgtca
     2101 cccatgctgc ctgctggccc tggccctgaa gccccagtac cagccaaaca tggcagccct
     2161 gggagacccc gagatcctaa cacatgtttc ttcgaggggc agcagcggcc ccacggggct
     2221 cgctgggcac ccaactatga cccactctgc tccctctgca tctgccagag acgaacagtg
     2281 atctgtgacc ctgtagtatg cccaccacca agctgtcccc acccggtgca ggcactggac
     2341 cagtgctgtc ccgtgtgtcc agagaaacaa cgcagtagag acctccccag cctaccaaat
     2401 ctggagccag gagagggctg ctattttgat ggtgaccgga gctggagggc agcgggtacc
     2461 cgatggcacc ctgttgtgcc cccctttggc ctaattaagt gtgctgtctg cacctgcaag
     2521 ggggccacgg gagaggtgca ctgtgagaag gtgcagtgtc ctcgcctggc ctgtgctcag
     2581 cctgtccgtg ccaaccccac cgactgctgc aaacagtgtc cagtagggtc agggactaat
     2641 gccaagctgg gagaccccat gcaggctgat gggcctcggg ggtgtcgctt tgctgggcag
     2701 tggttcccag agaatcagag ctggcaccca tcagtgcccc cctttgggga gatgagctgt
     2761 attacctgca gatgtggggc aggggtaccc cactgtgagc gggacgattg ttcaccgccg
     2821 ctatcctgtg gctcagggaa ggagagtcga tgctgttccc actgcacagc ccaaaggtcc
     2881 tctgagacta gaacccttcc agagctggag aaagaagcgg agcactccta gggagcatcc
     2941 agaaggccat atgaccaaga ggatgggcct gagctgggag aaggagtggt gctgaggacc
     3001 ccgactctcc tgtgggaacc cagtgccttt cgtgcctctg ctctgcttct tctcctcccc
     3061 cactacctct gggaaccaca agtctacaag gggaaagact gctgggtcag accaaggcca
     3121 tatccatgcg aactcctgcc ctgttttctt ttggcctctg tcccacaagc ttaactcttt
     3181 tcttctgtac agaacaccac tggcttattg ggattcttta atttatcctc actcagcacc
     3241 aagggttccc tcacaccatt cctgctaccc ctgagctgag cagagtcatt attagagatt
     3301 tttttttgta tttattaaaa catctttttt tcagtc
//
