LOCUS       NM_053128               3787 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus protocadherin beta 3 (Pcdhb3), mRNA.
ACCESSION   NM_053128 XM_001476050
VERSION     NM_053128.2
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 3787)
  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 3787)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3787)
  AUTHORS   Xu,L., Zheng,Y., Li,X., Wang,A., Huo,D., Li,Q., Wang,S., Luo,Z.,
            Liu,Y., Xu,F., Wu,X., Wu,M. and Zhou,Y.
  TITLE     Abnormal neocortex arealization and Sotos-like syndrome-associated
            behavior in Setd2 mutant mice
  JOURNAL   Sci Adv 7 (1) (2021)
   PUBMED   33523829
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3787)
  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   5  (bases 1 to 3787)
  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   6  (bases 1 to 3787)
  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   7  (bases 1 to 3787)
  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   8  (bases 1 to 3787)
  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   9  (bases 1 to 3787)
  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   10 (bases 1 to 3787)
  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
            AK030570.1 and BX523037.1.
            
            On or before Aug 8, 2008 this sequence version replaced
            XM_001476050.1, NM_053128.1.
            
            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 is intronless :: AK030570.1 [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
            1-2226              AK030570.1         1-2226
            2227-2378           BX523037.1         360-511
            2379-3787           AK030570.1         2379-3787
FEATURES             Location/Qualifiers
     source          1..3787
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="18"
                     /map="18 19.46 cM"
     gene            1..3787
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
                     /note="protocadherin beta 3"
                     /db_xref="GeneID:93874"
                     /db_xref="MGI:MGI:2136737"
     exon            1..3787
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
                     /inference="alignment:Splign:2.1.0"
     CDS             185..2539
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
                     /codon_start=1
                     /product="protocadherin beta-3"
                     /protein_id="NP_444358.2"
                     /db_xref="CCDS:CCDS29171.1"
                     /db_xref="GeneID:93874"
                     /db_xref="MGI:MGI:2136737"
                     /translation="MEAREESFLKQRQVLLLFVFLGGSLAGSMSRRYSVAEEKEKGFV
                     IANLATDLGLSIEELAERRAQAISKGNIQYFQLSHQTGDLLLVEKLDREDLCGSTEPC
                     VLHFQILLHDPLQFITNELEVIDVNDHAPEFFENAMQLKVLENSVPGTVIPLGNAVDL
                     DVGRNGLQNYTVSPTSHFHVHTRRRRDGRKYPELVLDRALDREEQSEISLTLTALDGG
                     SPPRSGTTQVHILVLDTNDNAPEFTQSLYEVQILEKSPIGSVITTVSASDLDTGNFGA
                     ISYVFFHASEEILETFRLNSSTGNIQLLKGLDYEAINTYEVDIEAKDGGGLSGKCTVI
                     VQILDVNDNPPELTLSSVNSLIPENSAETVVAVFSVSDLDSGDNGRVTCSIQNDLPFI
                     LKPSVENFYTIASEWALDREIRAEYNITITVSDLGTPRLTTQHTITVQVSDLNDNAPA
                     FTQTSYTMSVRENNSPALHIGTISATDSDSGSNAHITYSLLPPHDPQLALDSLISINA
                     DNGQLFALRALDYEALQAFEFHVGATDGGSPALSSQALVRVVVLDDNDNAPFVLYPLQ
                     NASAPCTELLPRAAETGYLVTKVVAVDRDSGQNAWLSFQLLKSTEPGLFSVWAHNGEV
                     RTARLLSERDMLKQKLLLLVKDNGDPPRSASVTLNVLLVDGFSQPYLPLPEVARDSVQ
                     NDVDLLTLYLVIALASVSSLFLLSVLLFVGVRLCRRARAASMGGCSVPEGHFPGHLVD
                     VSGMGTLSQSYQYEVCLTGDAGTGEFKLLNPVIPNLFLEESERS"
     regulatory      3151..3156
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
                     /note="hexamer: AATAAA"
     regulatory      3165..3170
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
                     /note="hexamer: AATAAA"
     polyA_site      3176
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
                     /note="major polyA site"
     polyA_site      3189
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
     regulatory      3525..3530
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
                     /note="hexamer: ATTAAA"
     polyA_site      3548
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
                     /note="major polyA site"
     regulatory      3714..3719
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
                     /note="hexamer: AATAAA"
     polyA_site      3744
                     /gene="Pcdhb3"
                     /gene_synonym="PcdhbC"
                     /note="major polyA site"
ORIGIN      
        1 agtactcaga ctccgatgat gtaaaaccac tgcttgtgtg aacctgggta gatttttaag
       61 cacaaaaatc tgaatctctg gaaaacatta gttgttaggc tgtctccaaa agaccttgct
      121 tttcacagag agatataagg cccctcttgg tgacaagccc ctggaaatac accgcagaaa
      181 tacaatggag gccagagagg aaagctttct taaacaaagg caagtcttgc ttctctttgt
      241 ttttctgggt gggtctcttg ctgggtccat gtctaggcgc tattctgtgg cggaggaaaa
      301 ggagaagggc ttcgtaatag ccaatttagc gacggatctg gggcttagta tagaagaact
      361 ggctgaaagg agagctcaag ctatctccaa agggaacata cagtattttc agctcagtca
      421 tcagaccgga gatttgctct tagttgagaa attggaccgg gaggatttgt gtggctcgac
      481 agagccttgt gtgctgcact ttcagatatt gctgcatgat cctttgcagt ttattacaaa
      541 tgagctcgag gtcatagatg taaatgacca tgccccggag ttctttgaaa atgcaatgca
      601 gctgaaagtc ctggaaaact ccgtgcctgg gacagtaatt cctttgggaa atgccgtgga
      661 cctggatgtg ggaagaaacg gactccagaa ctacacggtc tctcccacgt ctcattttca
      721 tgttcacacc cgccgtcgca gggatggaag aaagtatcca gagctagttc tagacagagc
      781 tctggatcgg gaagagcagt cagagatcag tttaactctc acagccctgg atggaggatc
      841 cccgcctcgt tctggaacta cccaggtcca catcctggtc ttagacacaa atgataatgc
      901 cccagaattt acacagtcac tctatgaggt tcaaatttta gagaaaagcc ctattggctc
      961 tgtcattacc actgtctctg cctctgactt ggatacggga aattttggtg caatatcata
     1021 tgtctttttt catgcttctg aagaaattct cgaaactttt cgactgaact ccagtactgg
     1081 taatatacag ctacttaagg gtttggatta tgaagcaatt aatacttatg aggttgacat
     1141 agaggccaag gatggtggag gcctttcagg gaaatgcaca gtcatagttc agatacttga
     1201 tgtgaacgat aacccaccag aactgaccct gtcatcagtt aacagtctta tccccgagaa
     1261 ttcagcagaa actgtggtgg ctgttttcag tgtttctgat ttagactctg gagataacgg
     1321 aagagtgaca tgttccatcc agaacgacct ccccttcatc ttgaaaccat ctgtagagaa
     1381 cttctatact atagcgtccg aatgggcttt ggacagagag atcagagctg agtacaacat
     1441 caccatcacg gtctcagacc tgggcacacc caggctcaca acccagcaca ccataacagt
     1501 gcaagtgtct gacctcaacg acaacgcccc cgccttcacc caaacttcct acaccatgtc
     1561 ggtccgtgag aacaacagcc ctgccctgca cataggcacc atcagtgcca cagactcaga
     1621 ctcaggctcc aatgcccaca tcacctactc gctgctgccg ccccacgacc cacagctggc
     1681 cctcgattca ctcatctcca tcaatgctga caacgggcag ctgtttgcac tcagggcgct
     1741 ggactatgag gccctgcagg ccttcgagtt ccatgtgggc gccacagatg gaggctcacc
     1801 cgcgctcagc agccaggctc tggtgcgcgt ggtggtgctg gacgacaatg acaatgcgcc
     1861 cttcgtgctc tacccactac agaacgcttc tgcgccctgc actgagctgc tgcccagggc
     1921 tgcggagact ggatacctgg tcaccaaggt agtggcagtg gaccgcgact ctggacagaa
     1981 tgcctggctg tcattccagc tgctcaagtc cacagagccc gggttgttca gtgtgtgggc
     2041 tcacaatggc gaggtgcgca ccgccaggct gctgagtgag cgcgatatgc tcaagcaaaa
     2101 gctgctgcta ctggtcaagg acaatgggga tcctcctcgc tctgcaagtg tcaccctgaa
     2161 tgtgctgcta gtggatggct tttctcaacc ctacctgcct ttgcctgagg tggcacgcga
     2221 ctccgtccaa aacgacgtgg acttgctcac gttgtactta gtcatcgcct tggcatctgt
     2281 gtcttctctc ttcctcttgt ctgtgctgct gtttgtgggg gtgagactgt gcaggagggc
     2341 cagagcagct tctatgggtg gctgctctgt gcctgaggga cactttcctg gccacctggt
     2401 ggacgtcagc ggtatgggga ccctgtcaca gagctaccag tatgaggtgt gtctgacagg
     2461 agatgctggg actggtgagt tcaaactcct gaatccggtg ataccaaacc tgtttctgga
     2521 agaatctgaa agaagttaag ggaagttccc actgtaggag cagctttgta gtcagctaag
     2581 aattgtaagt ggtttgtcct ctcttggtcc tggtaaactt cttattctaa ttattctttt
     2641 aaaaagttgt actacccatt ttttttcttt atcagtaatt caagccatgg tatcccaaat
     2701 agctttaaac ttattatgtt cttattaata ctgatttttc ttaggatttt gtagttgtgc
     2761 ctattcattt tctctctatt taggcatgtc tgagcgatga ttatcctaac agttaatgaa
     2821 atgaatgtct ttacaacagt atggaacttt tcaatgcact taagaaaaat taaaattgta
     2881 tttgtggcac atatctttac catataactt tatgtatttt taggctgcat tgttttgagt
     2941 tcattgagtt cttggccttt ttaggttaag cagtctgaga gctgtaaaat ctagcacacc
     3001 tctctcctaa actgtacgta aaagcttgct tcctgaaacc atcagtgcac agaagttgtg
     3061 ccctgttctg ttgtgagcac catgtataca aaagattgtt atgttcattt gttcaaaggc
     3121 atgtcataag tagtaagacc aaacgtccca aataaatatc atacaataaa aattaaggag
     3181 aaaatatcat atgcttgatc ttcgtttttg tgaatccagt ccgttaaacc actggtttga
     3241 cacaatcctt ttaaaaagta atatcagaag cagaattatg aagcaactcc ttgtaagtta
     3301 gttgaggact cttgagggca tcaactttct ccttccttcc tttaccacgg ggtggaagtc
     3361 taagtatgat gacagactgt attttcttgg gatctctttg cttcctctac ctttcaaaag
     3421 aggaaatttc ttctgatgcg tggctcttat gtttgatact gatcattggc taatctcaga
     3481 tttttacttt ataatacttg atagtgatgg gaagtttctt gatcattaaa attatttggg
     3541 gtgtttaatt ttgcttttgt tgcctagtgt ggacttcagt tattattacc ttagttttta
     3601 gattaagaaa attttatttg tatgaagtat atattatttt gaacacaaat accccagaac
     3661 cacatcgcac ttgtctgaat aacagttgtt tgcttgtcat gttctgcagg tctaataaag
     3721 ctgccatgta atttataagt agaattatat tgttctgact ataaaatgcc atcggacatt
     3781 ttcgacc
//
