LOCUS       NM_053134               3055 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus protocadherin beta 9 (Pcdhb9), mRNA.
ACCESSION   NM_053134
VERSION     NM_053134.3
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 3055)
  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 3055)
  AUTHORS   Mancia Leon,W.R., Spatazza,J., Rakela,B., Chatterjee,A., Pande,V.,
            Maniatis,T., Hasenstaub,A.R., Stryker,M.P. and Alvarez-Buylla,A.
  TITLE     Clustered gamma-protocadherins regulate cortical interneuron
            programmed cell death
  JOURNAL   Elife 9, e55374 (2020)
   PUBMED   32633719
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3055)
  AUTHORS   Elbert,A., Vogt,D., Watson,A., Levy,M., Jiang,Y., Brule,E.,
            Rowland,M.E., Rubenstein,J. and Berube,N.G.
  TITLE     CTCF Governs the Identity and Migration of MGE-Derived Cortical
            Interneurons
  JOURNAL   J Neurosci 39 (1), 177-192 (2019)
   PUBMED   30377227
REFERENCE   4  (bases 1 to 3055)
  AUTHORS   Thompson,C.L., Ng,L., Menon,V., Martinez,S., Lee,C.K.,
            Glattfelder,K., Sunkin,S.M., Henry,A., Lau,C., Dang,C.,
            Garcia-Lopez,R., Martinez-Ferre,A., Pombero,A., Rubenstein,J.L.R.,
            Wakeman,W.B., Hohmann,J., Dee,N., Sodt,A.J., Young,R., Smith,K.,
            Nguyen,T.N., Kidney,J., Kuan,L., Jeromin,A., Kaykas,A., Miller,J.,
            Page,D., Orta,G., Bernard,A., Riley,Z., Smith,S., Wohnoutka,P.,
            Hawrylycz,M.J., Puelles,L. and Jones,A.R.
  TITLE     A high-resolution spatiotemporal atlas of gene expression of the
            developing mouse brain
  JOURNAL   Neuron 83 (2), 309-323 (2014)
   PUBMED   24952961
REFERENCE   5  (bases 1 to 3055)
  AUTHORS   Junghans,D., Heidenreich,M., Hack,I., Taylor,V., Frotscher,M. and
            Kemler,R.
  TITLE     Postsynaptic and differential localization to neuronal subtypes of
            protocadherin beta16 in the mammalian central nervous system
  JOURNAL   Eur J Neurosci 27 (3), 559-571 (2008)
   PUBMED   18279309
REFERENCE   6  (bases 1 to 3055)
  AUTHORS   Vanhalst,K., Kools,P., Vanden Eynde,E. and van Roy,F.
  TITLE     The human and murine protocadherin-beta one-exon gene families show
            high evolutionary conservation, despite the difference in gene
            number
  JOURNAL   FEBS Lett 495 (1-2), 120-125 (2001)
   PUBMED   11322959
REFERENCE   7  (bases 1 to 3055)
  AUTHORS   Wu,Q., Zhang,T., Cheng,J.F., Kim,Y., Grimwood,J., Schmutz,J.,
            Dickson,M., Noonan,J.P., Zhang,M.Q., Myers,R.M. and Maniatis,T.
  TITLE     Comparative DNA sequence analysis of mouse and human protocadherin
            gene clusters
  JOURNAL   Genome Res 11 (3), 389-404 (2001)
   PUBMED   11230163
REFERENCE   8  (bases 1 to 3055)
  AUTHORS   Wu,Q. and Maniatis,T.
  TITLE     Large exons encoding multiple ectodomains are a characteristic
            feature of protocadherin genes
  JOURNAL   Proc Natl Acad Sci U S A 97 (7), 3124-3129 (2000)
   PUBMED   10716726
REFERENCE   9  (bases 1 to 3055)
  AUTHORS   Wu,Q. and Maniatis,T.
  TITLE     A striking organization of a large family of human neural
            cadherin-like cell adhesion genes
  JOURNAL   Cell 97 (6), 779-790 (1999)
   PUBMED   10380929
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK032626.1 and BC055319.1.
            
            On Sep 1, 2006 this sequence version replaced NM_053134.2.
            
            ##Evidence-Data-START##
            Transcript is intronless :: AK032626.1, BC055319.1 [ECO:0000345]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1136              AK032626.1         2-1137
            1137-2595           BC055319.1         1112-2570
            2596-3055           AK032626.1         2597-3056
FEATURES             Location/Qualifiers
     source          1..3055
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="18"
                     /map="18 19.48 cM"
     gene            1..3055
                     /gene="Pcdhb9"
                     /gene_synonym="Pcdhb4C; PcdhbI"
                     /note="protocadherin beta 9"
                     /db_xref="GeneID:93880"
                     /db_xref="MGI:MGI:2136744"
     exon            1..3055
                     /gene="Pcdhb9"
                     /gene_synonym="Pcdhb4C; PcdhbI"
                     /inference="alignment:Splign:2.1.0"
     CDS             101..2587
                     /gene="Pcdhb9"
                     /gene_synonym="Pcdhb4C; PcdhbI"
                     /codon_start=1
                     /product="protocadherin beta 9"
                     /protein_id="NP_444364.3"
                     /db_xref="CCDS:CCDS37780.1"
                     /db_xref="GeneID:93880"
                     /db_xref="MGI:MGI:2136744"
                     /translation="MSNTVKIPPKRESEFSVSKHLETATGLDASMHFLIMEKLGRIHL
                     NRQVMAFIFMMVLVQVCSEPTIRYSILEETESGSFVAHLAKDLGLGARELAARSARVL
                     SDDYKQRLLLDPETGDLLLREKVDREEVCSTVDPCVLHFQVTLEKPVQYFQRELLIQD
                     INDHAPEFPDRELLLRIPENSQQGTQFSLNLAQDLDVGSNGLQQYTVSPNPYFHVLTQ
                     NNSKGKKYPELVQDRGLDREEQAELSLTLTALDGGSPPRSGTALVRILIMDINDNAPE
                     FVNSPYEVQVLESSPPDSPVLTVLARDADAGNFGRVSYGFFQASDEIQQTFSINATSG
                     DMRLKKKLDFEKIKSYHVEIEAIDGGGLSGKGSVTIEVVDVNDNAPELTISSLTSSVP
                     ENAPETIISIFRVGDRDSGENGKMVCSIPENLPFILKSTFKNFYTLVTESPLDRESRA
                     EYNITIMVSDMGTPRLTTWHTIKVQVSDINDNTPAFTQTSYTMFVRENNSPALHIGTI
                     SATDSDSGSNAHITYSLLPPHDPELALSSLISINADNGQLFALRALDYEALQVFEFHV
                     GATDGGSPPLSSQALVRVVVLDDNDNAPFVLYPMQNASAPFTELLPRAAEPGYLVTKV
                     VAVDRDSGQNAWLSFQLLKATEPGLFSVWAHNGEVRTTRLLSERDVPKHRLLLVVKDN
                     GEPQRSASVTLQVLLVDGFSQSYLPLPEVARDPAHEDEDVLTLYLVIALASVSSLFLL
                     SVLLFVGVRLCRRAREVSLGGCSMPGEHFPGHLVDVSGAGTLSQSYQYEVCLRGDSGT
                     GEFKFLKPMIPNAGIEIMESPHCRDSFVFN"
     regulatory      3036..3041
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Pcdhb9"
                     /gene_synonym="Pcdhb4C; PcdhbI"
                     /note="hexamer: AATAAA"
     polyA_site      3054
                     /gene="Pcdhb9"
                     /gene_synonym="Pcdhb4C; PcdhbI"
                     /note="major polyA site"
ORIGIN      
        1 actgttgcaa tacagaacaa aggaagcaga caagagcttt gcaagcacta tggagctata
       61 gagggtttgg ggcaagaata taatggatta atatgagatt atgagcaaca cggtgaagat
      121 tcctccaaag agggaatcag aattcagtgt ttcaaaacat ttggagactg ctacaggatt
      181 ggatgcaagc atgcatttcc tcatcatgga gaagctgggg agaattcacc taaacaggca
      241 agtaatggca tttattttta tgatggtttt ggttcaggtt tgcagtgagc caacaattcg
      301 atactctatc ttagaggaaa cagaaagtgg ctcctttgta gcccacctgg ccaaggatct
      361 gggtctggga gctagggagc tggctgccag gtctgcacgg gtgttgtctg atgattacaa
      421 gcagagatta ctgctggatc ctgagactgg agatttgctt ctgagggaga aagtagaccg
      481 ggaggaggtg tgtagcactg tggatccctg tgtgctgcat ttccaggtga ctcttgaaaa
      541 gccagtgcaa tattttcaaa gagaattatt gatccaggac ataaatgatc atgctccaga
      601 attcccagat agagaactgc tcttgagaat accagagaac agccagcaag gcacacaatt
      661 ttcactgaat ttagcccagg acttggatgt gggcagcaat gggcttcaac aatacacagt
      721 cagccccaac ccttattttc acgtcctcac tcaaaataat agtaaaggca aaaaataccc
      781 agagttggtg caggacagag gcctggacag agaggagcag gcagagctga gcttaaccct
      841 cacagctctg gatggcgggt ctccaccgag gtcaggaaca gccctggttc gaatcctgat
      901 catggatatc aatgacaatg ctcctgagtt tgtgaacagt ccctatgagg tgcaggtcct
      961 agagagcagt cctccagact ccccagtctt gactgtctta gcacgggatg cagatgctgg
     1021 caactttggg agagtttcct atggcttctt tcaagcatca gatgaaatcc aacaaacatt
     1081 ctcaataaac gcaactagtg gagacatgcg attgaaaaag aaattggatt ttgaaaaaat
     1141 taaatcttac catgtggaaa tcgaggccat agatggaggt gggctttctg ggaaaggctc
     1201 tgtaacgata gaggtggtgg atgtgaatga caatgcccca gagctgacca tatcttcact
     1261 gaccagctct gtcccagaaa atgctcctga gacgatcata agcatcttca gagttgggga
     1321 cagggattcc ggagagaatg gaaagatggt ttgttctatt ccagagaatc tgccatttat
     1381 tctgaaatcc accttcaaga acttctacac cctggtgaca gagagccctc tggacagaga
     1441 aagcagagct gagtacaata tcaccatcat ggtctctgac atgggcacac ccaggctcac
     1501 aacatggcac accataaagg tgcaggtgtc cgacatcaac gacaacaccc ccgccttcac
     1561 ccaaacctcc tacaccatgt ttgtccgcga gaacaacagc cctgccctgc acataggcac
     1621 catcagtgcc acagactcag actcaggctc caatgcccac atcacctact cgctgctgcc
     1681 gccccatgat ccggaactgg ccctctcttc gttaatctcg attaacgctg acaatgggca
     1741 gctgtttgca ctcagggcgc tggactatga ggccctgcag gtcttcgagt tccacgtggg
     1801 cgccacagat ggaggctcac ctccacttag cagccaggct ctggtgcgcg tggtggtgct
     1861 ggatgacaat gacaatgcgc ccttcgtgct ctaccctatg cagaacgcct cggctccctt
     1921 cactgagctg ctgcctagag ctgcggagcc aggctacctg gtcaccaagg tggttgcagt
     1981 ggaccgcgac tctggccaga atgcctggct atccttccag ttgctcaagg ccacggaacc
     2041 tgggctgttc agcgtgtggg cgcacaatgg agaggtgcgc accaccaggt tgttgagtga
     2101 gcgcgatgtg cccaagcaca ggctactgct ggtggtcaag gacaatggag agcctcagcg
     2161 ctctgccagt gtcactctgc aggtgctgtt agtggatggc ttctcacaat cttacttacc
     2221 tcttccagag gtagcgcggg atcccgccca tgaagatgag gacgtgctta cattgtacct
     2281 ggtcattgcc ttggcatctg tgtcttctct cttcctcctg tctgtgctgc tgtttgtggg
     2341 ggtaagactg tgcagaaggg ccagagaggt ctctctgggt ggctgctcta tgcctggtga
     2401 acactttcct ggccacctgg tcgatgtcag tggagcaggg accctgtccc aaagctacca
     2461 gtatgaggtg tgtctgaggg gcgactctgg gactggtgag ttcaagttcc tgaaacccat
     2521 gatccccaat gctgggatag aaattatgga aagtccccac tgcagggata gctttgtatt
     2581 caactaagta atgaatctta agaattaata cacttttata tggttaagtg taacattaac
     2641 taactttagg agaaactacc ttgtgcatgt ctccaaccgc ttttgtttat cttattcata
     2701 ttacgcacgc ttagtctgcc attataccac atgttaaatg tgggttttct acatgttcag
     2761 tgtctttggt gaataataat ctcacgacta caagtagctc aagtagcata gaatttcctc
     2821 aagtgacttt aatgctcata tgaaaatttg aatttctgta taattatgac acctgttcta
     2881 actgtatctt ctatattttt aagatcagaa tgcttagaat tatttggcct tagaatactt
     2941 attttttccc aaatcatgtc aagatgcact tcattagaac actcagttgt gacacttgtc
     3001 gtgagcatca taaatgtttg tcattctttt catgaaataa agttgttaat ccatt
//
