LOCUS       NM_001003671            5296 bp    mRNA    linear   ROD 04-AUG-2023
DEFINITION  Mus musculus protocadherin alpha subfamily C, 1 (Pcdhac1), mRNA.
ACCESSION   NM_001003671
VERSION     NM_001003671.1
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 5296)
  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 5296)
  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 5296)
  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 5296)
  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 5296)
  AUTHORS   Wu S, Ying G, Wu Q and Capecchi MR.
  TITLE     Toward simpler and faster genome-wide mutagenesis in mice
  JOURNAL   Nat Genet 39 (7), 922-930 (2007)
   PUBMED   17572674
REFERENCE   6  (bases 1 to 5296)
  AUTHORS   Esumi S, Kakazu N, Taguchi Y, Hirayama T, Sasaki A, Hirabayashi T,
            Koide T, Kitsukawa T, Hamada S and Yagi T.
  TITLE     Monoallelic yet combinatorial expression of variable exons of the
            protocadherin-alpha gene cluster in single neurons
  JOURNAL   Nat Genet 37 (2), 171-176 (2005)
   PUBMED   15640798
REFERENCE   7  (bases 1 to 5296)
  AUTHORS   Morishita H, Murata Y, Esumi S, Hamada S and Yagi T.
  TITLE     CNR/Pcdhalpha family in subplate neurons, and developing cortical
            connectivity
  JOURNAL   Neuroreport 15 (17), 2595-2599 (2004)
   PUBMED   15570159
REFERENCE   8  (bases 1 to 5296)
  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 5296)
  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 5296)
  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 AY013768.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AY013768.1, SRR1660813.43675.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849387, SAMN01164131
                                           [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..5296
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10090"
                     /chromosome="18"
                     /map="18 19.46 cM"
     gene            1..5296
                     /gene="Pcdhac1"
                     /gene_synonym="CNRc1"
                     /note="protocadherin alpha subfamily C, 1"
                     /db_xref="GeneID:353236"
                     /db_xref="MGI:MGI:1891442"
     CDS             1..2895
                     /gene="Pcdhac1"
                     /gene_synonym="CNRc1"
                     /note="protocadherin alpha C1"
                     /codon_start=1
                     /product="protocadherin alpha-C1 precursor"
                     /protein_id="NP_001003671.1"
                     /db_xref="CCDS:CCDS29167.1"
                     /db_xref="GeneID:353236"
                     /db_xref="MGI:MGI:1891442"
                     /translation="MVGWGMAVLCWWVSCGAAAGQLEYSVLEETEPGVTVGNIASDLK
                     LSAAVLSLRNFRFLSNYRESYFGVDLGSGSLVVQELADREQLCPAKASCILTYELMFE
                     DPLELHKIRVHLLDTNDNSPLFPAGDVHLHIPEFLPPGARFILPNAQDADEGSNGALS
                     YSLSISQHFRLDMGSRVDGSKYPELVLEKALDREQRDTHLLVLTAQDGGLPARSGAAQ
                     VTITVVDTNDNAPVFEHSVYSTKVPETAPNGTVLFHVQALDPDEGSNGEVWYSLSNST
                     PAELRHLFHVHPKSGEVQVAASLGPPETLLEAFVEARDEGAFSLASTTKLLVEVTDVN
                     DHAPQMDFMTFSSSILEDAAPGTVIALLSVKDEDLGSNGKVTCSMSSKGPFQLKASFD
                     SYYRLLTDGPLDREQASEYQILISASDGGSPPLSTRRTLTVSVADVNDNTPNFPQPQQ
                     ELFVAENNSPGVSLGGVFAQDPDLGENGFVFYELLDVISERMPVSSSLVAVEPTTGVI
                     TAKTSFDFEQLRGFNFQVEGRDGGIPPRSATVTVNLFVVDRNDNAPDILFPLPRNGSI
                     PVERVPRFARAGHLVTKVVAEDADSGSNAWLSYHISQASDSSLFRISVNTGELRTARL
                     VFPTDAVKQSVVVVVQDHGEPPLSSSVILGVLLSNAAPQVIPDFEDIWEPRAQLSARN
                     LYLIIALVCISFLFLGCLFFFVCIKLNQSPDCCSQNFCHSPENERHKRTMASSPWVTS
                     ATIDVTTVERLSQTYLYQASLGPGYGNNSFFLHGKYKAADLRNLAPGVGMNLPVSCVQ
                     IRNRKGDHSNVEAVPRQPNPDWRYSASLRAGMHSSVHLEEAGILRAGPGGPDQQWPTV
                     SSATPEPEAGEVSPPVGAGVNSNSWTFKYGPGNPKQSGPGELPDKFIIPGSPAIISIR
                     QEPANNQIDKSDFITFGKKEETKKKKKKKKGNKTQEKKEKGNSTTDNSDQ"
     exon            1..2436
                     /gene="Pcdhac1"
                     /gene_synonym="CNRc1"
                     /inference="alignment:Splign:2.1.0"
     exon            2437..2495
                     /gene="Pcdhac1"
                     /gene_synonym="CNRc1"
                     /inference="alignment:Splign:2.1.0"
     exon            2496..2584
                     /gene="Pcdhac1"
                     /gene_synonym="CNRc1"
                     /inference="alignment:Splign:2.1.0"
     exon            2585..5296
                     /gene="Pcdhac1"
                     /gene_synonym="CNRc1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 atggtgggct ggggaatggc ggttctgtgt tggtgggtct cttgtggtgc tgcagcggga
       61 cagctggagt attcggtgtt ggaggagacg gaaccgggag ttactgtagg caatatcgcc
      121 tcggacttga agctgtcagc agctgttctg tccttgcgga actttcgctt cctttccaac
      181 tacagagagt cctacttcgg ggtcgacctg ggcagcggta gcttggtggt tcaagagcta
      241 gcggaccgcg agcagttgtg cccggccaaa gcttcttgca tcctgacata tgagctaatg
      301 tttgaggacc ctctagagct gcacaaaata cgtgttcacc ttctagacac caacgacaat
      361 tcacctctct tccctgctgg agatgtgcac ttgcacatcc cggagttcct gccaccggga
      421 gcccggttca ttcttccgaa tgcccaagat gccgatgagg gaagcaacgg cgcgctaagt
      481 tacagcctaa gcattagcca gcactttcgc ctggacatgg gatcgcgggt cgatggtagc
      541 aaatacccag agctggtgct agagaaagcg ctggatcgag agcagcggga cacccacctg
      601 ctggtgctca ctgctcagga tggtggcctg cctgcacgct ctggggccgc tcaagtcact
      661 atcactgtgg tggacaccaa cgacaatgca cctgtatttg agcactccgt atacagtact
      721 aaggttccag agactgcacc caatggaact gtgctattcc acgttcaagc cttggatccg
      781 gatgaaggat ccaatggaga agtctggtac tccttaagca atagcacacc agcagagctg
      841 aggcacctct ttcacgtaca tcctaaaagt ggggaggttc aagtagctgc ttcactaggt
      901 ccaccagaaa cgttattgga agcatttgtt gaagcaagag atgaaggtgc ttttagtcta
      961 gctagcacta ctaaactgct tgtggaggtg actgatgtga acgatcatgc cccccagatg
     1021 gacttcatga ccttctccag ctcaatactc gaggatgcag ctcctggcac agtgattgct
     1081 ctccttagtg taaaggatga ggacctaggt tccaatggta aggtcacttg tagcatgtcc
     1141 agcaaaggcc cctttcagtt gaaggcttcc tttgatagct actacagact gctgaccgat
     1201 gggcccctgg atcgggagca agcaagtgaa taccagatcc tgatctctgc ttcagacggt
     1261 ggctcacccc cattaagtac ccgaaggaca ctcactgtgt cagttgctga tgtgaatgac
     1321 aacacaccaa actttcctca accacaacag gaactttttg tggctgaaaa caatagccct
     1381 ggagtttcct taggcggtgt gtttgctcag gacccagatc tgggggagaa tggctttgtc
     1441 ttttatgagc tgttggatgt catttctgaa cggatgccag tttcctccag cttggtggca
     1501 gtggaaccaa ccactggtgt tatcactgcc aaaacttcct ttgactttga gcagctcagg
     1561 gggtttaact tccaagtgga aggccgagat ggtggcattc ctcccagaag tgcaacagtg
     1621 actgtgaact tgtttgtggt agacaggaat gacaatgcac cagacatctt gtttcccttg
     1681 cctagaaatg gctctatccc agtggaaaga gtgccccgct ttgcccgagc tggacaccta
     1741 gtcacaaaag tggtagcaga ggatgcagac agtggttcca atgcctggct ctcctaccac
     1801 atttctcagg cttctgactc tagtcttttc agaatttcag tcaacaccgg agagctgcga
     1861 actgcacgtt tagtgtttcc cactgatgcg gtcaagcaga gcgtggtggt agtggttcag
     1921 gaccacggag agccaccgct ttcctcctct gttattctgg gtgtgctgtt gagcaacgca
     1981 gctcctcagg tcattccaga ctttgaagat atctgggaac caagagcaca gctttctgcc
     2041 cggaacttgt acttgataat agccctggtc tgcatttcct ttttatttct ggggtgcttg
     2101 tttttctttg tgtgcatcaa gttgaaccag agcccagatt gttgctctca gaacttctgt
     2161 cattctccag aaaatgagag acacaagagg acgatggctt ctagtccttg ggtgacatca
     2221 gccacaatag atgtcaccac agtcgagaga ctttctcaga catatctcta tcaagcttct
     2281 ctgggacctg gttatggtaa taacagcttt ttcttgcatg ggaaatacaa ggctgctgat
     2341 ctgagaaatc tggcccctgg tgtaggaatg aatttgccag tatcctgtgt tcagattcgg
     2401 aataggaaag gggatcattc aaatgtggaa gccgtgcccc ggcagcccaa ccctgactgg
     2461 cgctactctg cctcgctaag agcaggcatg cacagctctg tgcacctgga ggaggctggc
     2521 attctacggg ctggtccagg agggcctgat cagcagtggc caacagtatc cagtgcaaca
     2581 ccagaacctg aggcaggaga ggtgtcccct ccggtgggcg ccggtgtcaa cagcaacagc
     2641 tggaccttta aatacggacc aggcaacccc aaacagtccg gtcccggtga gttgccagac
     2701 aaattcatta tcccaggatc tcctgcaatc atctccatcc ggcaggagcc tgctaacaac
     2761 caaattgaca aaagcgattt tataaccttc ggcaaaaagg aggagaccaa gaaaaagaag
     2821 aaaaagaaga agggtaacaa gacccaggag aaaaaagaga aagggaacag cacgacggac
     2881 aacagtgacc agtgaggcca ccaaatggaa acaagccact tagccagttt ttgtaataat
     2941 ggcaaatctc tcccatgtag caactccccg ctcctttctc ctatgacatg agccctcaga
     3001 aatctgcaga aagttccctg tgtctgtctt gatcgcattt aacaggtttt gtcttaaaaa
     3061 gctttcctaa gtctggtgtt aactctctct ctctccactc tggcttgttt tcagaaccta
     3121 aaaagcagac ccaggtttcc tttctccccc gccgcaaagg agaagcttcc cagccccgcc
     3181 agtgagagtt ggactctctg ccctgtgctt caagcatcct gtcttgatga tatttgcagg
     3241 gcaggctgaa aggtattcag gttgagcagt tgggtgtttg tggtcactgg gtatgtgtgg
     3301 ctaccaagag tgttggagag cctggtattg gctgggatgg tccagattag actagttaac
     3361 acaaggaggg ctggggctca aaggcacatc aacaccggga gtctttcatc tggaggggga
     3421 aaatgtgaaa cttacaagga ccagactttc tcaatctctc aactagacat atgatggcca
     3481 tcctctaaca gacaaaacca tccccaccgg caaagcttta ggagcccctc aagtgtgctg
     3541 gctataacat cactgtattc aaaacctgca gtatgcacac gagccagcag ttcaagcgtt
     3601 taacaagagg gtcggccagg gcaacagaag cagatctgat gtgtttcctg tacacgtcct
     3661 tgtgctcacg ctattaaaaa ttcttttgca cacaatgttt atgaaaaggt ctcatccttt
     3721 tccaacaaca catatgcaaa agcaaaagaa aaacccaaga cctcacttta tgctgtttgt
     3781 tgtttgatag atttattaaa aagaaaagag aaagtcgata gctataaatc tttaaaggaa
     3841 tatgatgaat acaatccccc caaccttccc tcaaaagaga atccagtcta cagccatttg
     3901 aaatgatcgt tgctgctaca gaagtgcttt aagagaattg cctggaacat ctgtattatc
     3961 ccggccacct gccaatcaca gctttactct ttcaggtcac tctggggctg cctcttgcat
     4021 gtattaatta ctaaatagaa ggatctttct ctcttttcta agaaaaatga tgtgcacttt
     4081 gattacacaa ccttctctaa cccacgatat caagacccag aaactgaaga aaaatcttgt
     4141 tttctcatgc atacagtgag cagacttttc attcctctgg ttctgtggtt gtctcggtgt
     4201 gctagcctac acctccacct tgtttagctt tccttttcta gaacactctg aattgctaac
     4261 cttactaaca cctatgatgt tacctgaatc aatctcccat atgtatgctg tatgctatta
     4321 taagactcct gagatatact tactctgtgc ttgtgtatgt gaatgttaat gcaactatta
     4381 cctagagtga actttaagct ttattgttga atgtaagccc attatatttc cttttgtaca
     4441 cctgtggaaa agtggaatag tgtttttttt aaaaccattg ttaatcagct tttgtgtatg
     4501 aaagacacag taaaatttct ttcttaaatc aagatgctgg tgattcaagg aattttattt
     4561 atggtcagcc aagggctgtc tcttgccaag aatcctgctg gcaagggaaa atggataaag
     4621 ctggtttttt tttttcctag taagaattct ggaataaata ctgaagaaag tccctgaggg
     4681 tatgcaagca caaaattgta ccaatctgac ctctttgaat ttgcagactg ctttgaaatg
     4741 ctatccggaa tatcagcttg tagaaagtaa taaaatttac tgttaccata aataagacat
     4801 tttaagttta ttgtgcacaa cttagatgtt tgattaatta tattatctac ttaaaagcat
     4861 ataaaagagg taggagtctg ttttaaaagg cataaaaaat ctcaaaaaaa aaaaacctgt
     4921 cttgtctact tttagcttca ttctcccata ttttgaaggg tgtgtaactt cagctctgca
     4981 ggattgcatg gggtaaaact cgttgacagc gcatgtgaac cattgctaca ttgtaggttg
     5041 tgatcatttt gccccactga agcccatgta actgacctta cgtgcctttt gaactaggag
     5101 aatcgggcta taatttatta atgatgataa tgataatgta tatgtacagc actttttaac
     5161 cttacaaagt gctttccaat tcgtgttagt tattagttat tacagctgta aggataaaac
     5221 acgtcatgtg gattcatttt taattggtgc tattggtatt tcctctgttc ttgctaataa
     5281 atggaaatgg tggtgt
//
