LOCUS       NM_054072               5248 bp    mRNA    linear   ROD 04-AUG-2023
DEFINITION  Mus musculus protocadherin alpha 1 (Pcdha1), mRNA.
ACCESSION   NM_054072
VERSION     NM_054072.1
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 5248)
  AUTHORS   Mancia Leon WR, Spatazza J, Rakela B, Chatterjee A, Pande V,
            Maniatis T, Hasenstaub AR, Stryker MP 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   2  (bases 1 to 5248)
  AUTHORS   Elbert A, Vogt D, Watson A, Levy M, Jiang Y, Brule E, Rowland ME,
            Rubenstein J and Berube NG.
  TITLE     CTCF Governs the Identity and Migration of MGE-Derived Cortical
            Interneurons
  JOURNAL   J Neurosci 39 (1), 177-192 (2019)
   PUBMED   30377227
REFERENCE   3  (bases 1 to 5248)
  AUTHORS   Fan L, Lu Y, Shen X, Shao H, Suo L and Wu Q.
  TITLE     Alpha protocadherins and Pyk2 kinase regulate cortical neuron
            migration and cytoskeletal dynamics via Rac1 GTPase and WAVE
            complex in mice
  JOURNAL   Elife 7, e35242 (2018)
   PUBMED   29911975
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 5248)
  AUTHORS   Toyoda S, Kawaguchi M, Kobayashi T, Tarusawa E, Toyama T, Okano M,
            Oda M, Nakauchi H, Yoshimura Y, Sanbo M, Hirabayashi M, Hirayama T,
            Hirabayashi T and Yagi T.
  TITLE     Developmental epigenetic modification regulates stochastic
            expression of clustered protocadherin genes, generating single
            neuron diversity
  JOURNAL   Neuron 82 (1), 94-108 (2014)
   PUBMED   24698270
REFERENCE   5  (bases 1 to 5248)
  AUTHORS   Gendrel AV, Tang YA, Suzuki M, Godwin J, Nesterova TB, Greally JM,
            Heard E and Brockdorff N.
  TITLE     Epigenetic functions of smchd1 repress gene clusters on the
            inactive X chromosome and on autosomes
  JOURNAL   Mol Cell Biol 33 (16), 3150-3165 (2013)
   PUBMED   23754746
REFERENCE   6  (bases 1 to 5248)
  AUTHORS   Murata Y, Hamada S, Morishita H, Mutoh T and Yagi T.
  TITLE     Interaction with protocadherin-gamma regulates the cell surface
            expression of protocadherin-alpha
  JOURNAL   J Biol Chem 279 (47), 49508-49516 (2004)
   PUBMED   15347688
REFERENCE   7  (bases 1 to 5248)
  AUTHORS   Takei Y, Hamada S, Senzaki K, Mutoh T, Sugino H and Yagi T.
  TITLE     Two novel CNRs from the CNR gene cluster have molecular features
            distinct from those of CNR1 to 8
  JOURNAL   Genomics 72 (3), 321-330 (2001)
   PUBMED   11401448
REFERENCE   8  (bases 1 to 5248)
  AUTHORS   Wu Q, Zhang T, Cheng JF, Kim Y, Grimwood J, Schmutz J, Dickson M,
            Noonan JP, Zhang MQ, Myers RM 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 5248)
  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 5248)
  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     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AY013756.1.
            
            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 :: AY013756.1, BP768431.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131, SAMN01164132
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..5248
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10090"
                     /chromosome="18"
                     /map="18 19.46 cM"
     gene            1..5248
                     /gene="Pcdha1"
                     /gene_synonym="CNR"
                     /note="protocadherin alpha 1"
                     /db_xref="GeneID:116731"
                     /db_xref="MGI:MGI:2150982"
     CDS             1..2847
                     /gene="Pcdha1"
                     /gene_synonym="CNR"
                     /note="protocadherin alpha 2"
                     /codon_start=1
                     /product="protocadherin alpha-1 precursor"
                     /protein_id="NP_473413.1"
                     /db_xref="CCDS:CCDS37774.1"
                     /db_xref="GeneID:116731"
                     /db_xref="MGI:MGI:2150982"
                     /translation="MLFSRLRGLRARRLLLFSLLFLAAWEAGSGQIHYSVPEEAKHGT
                     FVGRIAQDLGLELTELVPRLFRVASKDRGDLLEVNLQNGILFVNSRIDREELCGRSAE
                     CSIHLEVIVDRPLQVFHVEVKVKDINDNPPVFKGAEQRIFIPENRQLDSRFPLEGAVD
                     ADIGANSLLTYTLSPTDYFSLKVETTDELSKSLSLELRKSLDREETPELQLLLTATDG
                     GKPELEGTVRLQITVLDVNDNAPLFDQAIYRAQLVESTVNGTLVTTLNATDADEGVNG
                     EVVFSFGNDVSLDIQEKFNVDSLSGEIRVIGDLDYEKTKSYEIQIKAVDKGTPSMSNH
                     CKVLVKVLDINDNAPELSITSLSLPIKEDTPLNTIIALIKVSDIDSGVNGQVTCSLTP
                     HVPFKLVSTFKNYYSLVLDSTLDRETTADYKVVVTARDGGSPSLWATASVSVEVADVN
                     DNAPVFAQPEYTVFVKENNPPGAHIFTVSAMDADAQENALVSYSLVERRVGERLLSSY
                     VSVHAESGKVFALQPLDHEELELLQFQVSARDAGVPALGSNVTLQVFVLDENDNPPTL
                     LGPHAGSAVSELVSRTMGAGHVVTKVRAVDADSGYNAWLSYELQPPTGGARNPFRVGL
                     YTGEISTTRSLDEVDVPRQRLLVLVKDHGEPMLTATATVLVSLVESSPIQKASLPVLT
                     GAVGSKASLVDVNVYLIIAICAVSSLLVLTLLLYTALRCSATPTDGACGPGKPMLVCS
                     SAVGSWSYSQQRRQKVCSGEGPPKTDLMAFSPGLAPGLNIAERSDHAEVNSDLSGNPR
                     QPNPDWRYSASLRAGMHSSVHLEEAGILRAGPGGPDQQWPTVSSATPEPEAGEVSPPV
                     GAGVNSNSWTFKYGPGNPKQSGPGELPDKFIIPGSPAIISIRQEPANNQIDKSDFITF
                     GKKEETKKKKKKKKGNKTQEKKEKGNSTTDNSDQ"
     exon            1..2388
                     /gene="Pcdha1"
                     /gene_synonym="CNR"
                     /inference="alignment:Splign:2.1.0"
     exon            2389..2447
                     /gene="Pcdha1"
                     /gene_synonym="CNR"
                     /inference="alignment:Splign:2.1.0"
     exon            2448..2536
                     /gene="Pcdha1"
                     /gene_synonym="CNR"
                     /inference="alignment:Splign:2.1.0"
     exon            2537..5248
                     /gene="Pcdha1"
                     /gene_synonym="CNR"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 atgctgtttt ccaggctccg aggcctgaga gcccggcgcc tgctcttgtt ctcgcttctg
       61 tttcttgcag cctgggaggc agggagcggc cagattcatt actctgtccc agaggaagcc
      121 aaacacggca cctttgtggg ccgcatcgcg caggacctgg ggctggagct gacggagctg
      181 gtgccccgcc tattcagggt ggcgtccaag gatcgcgggg accttctgga ggtaaatctg
      241 cagaatggca ttttgtttgt gaattctcgg atcgaccggg aggagctgtg cgggcggagc
      301 gcggagtgta gcatccacct ggaggtgatc gtggacaggc cgctgcaggt tttccacgtg
      361 gaggtgaagg ttaaagatat taatgataac ccaccagttt tcaaaggcgc agagcaaagg
      421 atatttattc ctgaaaacag acaactagat tcacggtttc cactagaggg cgccgtggac
      481 gcagacattg gtgccaattc tcttttaact tacacgctga gccccactga ttacttttct
      541 ttaaaggtag agacaacaga cgaactcagt aaatcccttt cgcttgaact gagaaaatct
      601 ttggatagag aagaaacacc agaacttcag ttattactga cagccaccga cgggggcaag
      661 ccagagctgg aggggacagt tcggctgcag attactgtgc tcgatgttaa tgacaacgcc
      721 ccactgtttg accaggccat ctacagagca cagttagtag aatctacagt gaatgggaca
      781 ttagtgacga cgttaaatgc cactgacgct gatgaaggtg ttaatggtga agttgtgttt
      841 tcctttggca atgacgtttc tcttgacatt caagaaaaat tcaatgtgga ttctctttca
      901 ggagaaatta gagtgatcgg tgatctagat tatgaaaaaa caaaatccta tgaaattcaa
      961 ataaaggcag ttgataaagg gactccctcc atgtcaaatc actgcaaggt tttggtgaaa
     1021 gtactggata taaatgataa tgctccagag ctgtcgatca catccttgtc tttgcccatc
     1081 aaagaggata ctccacttaa cactatcatc gcactcatca aggtgtccga catcgactca
     1141 ggtgtcaacg ggcaggtgac ctgctcccta actcctcatg tccctttcaa gttggtgtcc
     1201 accttcaaga attactattc gcttgtgctg gacagcaccc tggaccgaga gaccacagcg
     1261 gactataagg tggtggtgac agcccgcgac gggggctcgc cctcgctgtg ggccacggcc
     1321 agcgtgtctg tggaggtggc tgacgtgaac gacaatgctc cagtgttcgc gcagcccgaa
     1381 tacactgtgt tcgtgaagga gaacaacccg cctggtgcgc acatcttcac ggtgtcagcg
     1441 atggacgcgg atgcgcagga gaatgcgctg gtgtcctact cgctggtgga gcggagggtg
     1501 ggcgagcgct tgctgtcgag ctatgtgtct gtgcacgcgg agagcggcaa ggtgttcgcg
     1561 ctgcagcctc tggaccatga ggagctggag ctgctgcagt tccaggtgag cgcgcgggat
     1621 gctggtgtgc ctgccctggg cagcaatgtg actctgcagg tgtttgtgct ggacgagaat
     1681 gacaatccac ccacactgct ggggcctcac gcaggcagcg cagtgagcga actggtgtca
     1741 cggacaatgg gtgcagggca tgtggtgaca aaggtgcgcg cggtggacgc ggactctggc
     1801 tacaatgcgt ggctgtccta tgaactacaa cctcctacag gtggtgcgcg caacccgttt
     1861 cgcgtgggtc tgtacactgg tgagattagc accacacgct ccttagatga ggtcgatgtt
     1921 ccacgacagc gtctcttggt gctggtgaag gaccatggag agccaatgct gactgctacc
     1981 gctaccgtgt tggtatctct ggtggaaagc agtccgattc agaaagcctc tttgcctgta
     2041 ttaaccggtg cagtgggttc caaggcatcg ctggtggatg tcaacgtgta cctgatcatc
     2101 gccatctgtg ccgtgtccag cctgttagtg ctcactttgc ttctgtacac agcgctgcgc
     2161 tgctccgcga cacccactga tggagcctgt ggtccgggga agcccatgct ggtgtgctcc
     2221 agcgcggtgg ggagctggtc atactcgcag cagaggcgac agaaggtgtg ctctggagag
     2281 ggtccaccta agaccgacct catggccttc agcccgggtt tagccccagg tttgaacata
     2341 gcggaaagaa gtgaccacgc agaagtaaat tcagatcttt ctggtaatcc ccggcagccc
     2401 aaccctgact ggcgctactc tgcctcgcta agagcaggca tgcacagctc tgtgcacctg
     2461 gaggaggctg gcattctacg ggctggtcca ggagggcctg atcagcagtg gccaacagta
     2521 tccagtgcaa caccagaacc tgaggcagga gaggtgtccc ctccggtggg cgccggtgtc
     2581 aacagcaaca gctggacctt taaatacgga ccaggcaacc ccaaacagtc cggtcccggt
     2641 gagttgccag acaaattcat tatcccagga tctcctgcaa tcatctccat ccggcaggag
     2701 cctgctaaca accaaattga caaaagcgat tttataacct tcggcaaaaa ggaggagacc
     2761 aagaaaaaga agaaaaagaa gaagggtaac aagacccagg agaaaaaaga gaaagggaac
     2821 agcacgacgg acaacagtga ccagtgaggc caccaaatgg aaacaagcca cttagccagt
     2881 ttttgtaata atggcaaatc tctcccatgt agcaactccc cgctcctttc tcctatgaca
     2941 tgagccctca gaaatctgca gaaagttccc tgtgtctgtc ttgatcgcat ttaacaggtt
     3001 ttgtcttaaa aagctttcct aagtctggtg ttaactctct ctctctccac tctggcttgt
     3061 tttcagaacc taaaaagcag acccaggttt cctttctccc ccgccgcaaa ggagaagctt
     3121 cccagccccg ccagtgagag ttggactctc tgccctgtgc ttcaagcatc ctgtcttgat
     3181 gatatttgca gggcaggctg aaaggtattc aggttgagca gttgggtgtt tgtggtcact
     3241 gggtatgtgt ggctaccaag agtgttggag agcctggtat tggctgggat ggtccagatt
     3301 agactagtta acacaaggag ggctggggct caaaggcaca tcaacaccgg gagtctttca
     3361 tctggagggg gaaaatgtga aacttacaag gaccagactt tctcaatctc tcaactagac
     3421 atatgatggc catcctctaa cagacaaaac catccccacc ggcaaagctt taggagcccc
     3481 tcaagtgtgc tggctataac atcactgtat tcaaaacctg cagtatgcac acgagccagc
     3541 agttcaagcg tttaacaaga gggtcggcca gggcaacaga agcagatctg atgtgtttcc
     3601 tgtacacgtc cttgtgctca cgctattaaa aattcttttg cacacaatgt ttatgaaaag
     3661 gtctcatcct tttccaacaa cacatatgca aaagcaaaag aaaaacccaa gacctcactt
     3721 tatgctgttt gttgtttgat agatttatta aaaagaaaag agaaagtcga tagctataaa
     3781 tctttaaagg aatatgatga atacaatccc cccaaccttc cctcaaaaga gaatccagtc
     3841 tacagccatt tgaaatgatc gttgctgcta cagaagtgct ttaagagaat tgcctggaac
     3901 atctgtatta tcccggccac ctgccaatca cagctttact ctttcaggtc actctggggc
     3961 tgcctcttgc atgtattaat tactaaatag aaggatcttt ctctcttttc taagaaaaat
     4021 gatgtgcact ttgattacac aaccttctct aacccacgat atcaagaccc agaaactgaa
     4081 gaaaaatctt gttttctcat gcatacagtg agcagacttt tcattcctct ggttctgtgg
     4141 ttgtctcggt gtgctagcct acacctccac cttgtttagc tttccttttc tagaacactc
     4201 tgaattgcta accttactaa cacctatgat gttacctgaa tcaatctccc atatgtatgc
     4261 tgtatgctat tataagactc ctgagatata cttactctgt gcttgtgtat gtgaatgtta
     4321 atgcaactat tacctagagt gaactttaag ctttattgtt gaatgtaagc ccattatatt
     4381 tccttttgta cacctgtgga aaagtggaat agtgtttttt ttaaaaccat tgttaatcag
     4441 cttttgtgta tgaaagacac agtaaaattt ctttcttaaa tcaagatgct ggtgattcaa
     4501 ggaattttat ttatggtcag ccaagggctg tctcttgcca agaatcctgc tggcaaggga
     4561 aaatggataa agctggtttt tttttttcct agtaagaatt ctggaataaa tactgaagaa
     4621 agtccctgag ggtatgcaag cacaaaattg taccaatctg acctctttga atttgcagac
     4681 tgctttgaaa tgctatccgg aatatcagct tgtagaaagt aataaaattt actgttacca
     4741 taaataagac attttaagtt tattgtgcac aacttagatg tttgattaat tatattatct
     4801 acttaaaagc atataaaaga ggtaggagtc tgttttaaaa ggcataaaaa atctcaaaaa
     4861 aaaaaaacct gtcttgtcta cttttagctt cattctccca tattttgaag ggtgtgtaac
     4921 ttcagctctg caggattgca tggggtaaaa ctcgttgaca gcgcatgtga accattgcta
     4981 cattgtaggt tgtgatcatt ttgccccact gaagcccatg taactgacct tacgtgcctt
     5041 ttgaactagg agaatcgggc tataatttat taatgatgat aatgataatg tatatgtaca
     5101 gcacttttta accttacaaa gtgctttcca attcgtgtta gttattagtt attacagctg
     5161 taaggataaa acacgtcatg tggattcatt tttaattggt gctattggta tttcctctgt
     5221 tcttgctaat aaatggaaat ggtggtgt
//
