LOCUS       NM_009960               5254 bp    mRNA    linear   ROD 12-MAR-2024
DEFINITION  Mus musculus protocadherin alpha 11 (Pcdha11), mRNA.
ACCESSION   NM_009960 XM_991317
VERSION     NM_009960.1
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 5254)
  AUTHORS   Osipovich,A.B., Dudek,K.D., Greenfest-Allen,E., Cartailler,J.P.,
            Manduchi,E., Potter Case,L., Choi,E., Chapman,A.G., Clayton,H.W.,
            Gu,G., Stoeckert,C.J. Jr. and Magnuson,M.A.
  TITLE     A developmental lineage-based gene co-expression network for mouse
            pancreatic beta-cells reveals a role for Zfp800 in pancreas
            development
  JOURNAL   Development 148 (6) (2021)
   PUBMED   33653874
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 5254)
  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 5254)
  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 5254)
  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   5  (bases 1 to 5254)
  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   6  (bases 1 to 5254)
  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   7  (bases 1 to 5254)
  AUTHORS   Sugino,H., Hamada,S., Yasuda,R., Tuji,A., Matsuda,Y., Fujita,M. and
            Yagi,T.
  TITLE     Genomic organization of the family of CNR cadherin genes in mice
            and humans
  JOURNAL   Genomics 63 (1), 75-87 (2000)
   PUBMED   10662547
REFERENCE   8  (bases 1 to 5254)
  AUTHORS   Senzaki,K., Ogawa,M. and Yagi,T.
  TITLE     Proteins of the CNR family are multiple receptors for Reelin
  JOURNAL   Cell 99 (6), 635-647 (1999)
   PUBMED   10612399
REFERENCE   9  (bases 1 to 5254)
  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
REFERENCE   10 (bases 1 to 5254)
  AUTHORS   Kohmura,N., Senzaki,K., Hamada,S., Kai,N., Yasuda,R., Watanabe,M.,
            Ishii,H., Yasuda,M., Mishina,M. and Yagi,T.
  TITLE     Diversity revealed by a novel family of cadherins expressed in
            neurons at a synaptic complex
  JOURNAL   Neuron 20 (6), 1137-1151 (1998)
   PUBMED   9655502
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AY013758.1.
            
            On May 4, 2006 this sequence version replaced XM_991317.1.
            
            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 :: AY013758.1, SRR1660821.190293.1
                                           [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..5254
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10090"
                     /chromosome="18"
                     /map="18 19.46 cM"
     gene            1..5254
                     /gene="Pcdha11"
                     /gene_synonym="A830022B16Rik; Cnr7; Crnr7"
                     /note="protocadherin alpha 11"
                     /db_xref="GeneID:12942"
                     /db_xref="MGI:MGI:1298372"
     exon            1..2394
                     /gene="Pcdha11"
                     /gene_synonym="A830022B16Rik; Cnr7; Crnr7"
                     /inference="alignment:Splign:2.1.0"
     exon            2395..2453
                     /gene="Pcdha11"
                     /gene_synonym="A830022B16Rik; Cnr7; Crnr7"
                     /inference="alignment:Splign:2.1.0"
     exon            2454..2542
                     /gene="Pcdha11"
                     /gene_synonym="A830022B16Rik; Cnr7; Crnr7"
                     /inference="alignment:Splign:2.1.0"
     exon            2543..5254
                     /gene="Pcdha11"
                     /gene_synonym="A830022B16Rik; Cnr7; Crnr7"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 atgttaagtt ttcagagaag gggatcctgc actctgccac cgctgcgctg gcttcttctc
       61 ctcgctgcct gggaggcagg gagcggccag ctccactact ctatcccaga ggaggccaaa
      121 cacggcacct tcgtgggccg catcgcgcag gacctggggc tggagctgac ggagctggtg
      181 ccccgcctgt tcagggtggc gtccaaggac cgcggggacc ttctggaggt aaatctgcag
      241 aatggcattt tgtttgtgaa ttctcggatc gaccgggagg agctgtgcgg gcggagcgcg
      301 gagtgcagca tccacctgga ggtgatcgtg gacaggccgc tgcaggtttt ccacgtggag
      361 gtggaggtga gggacattaa tgacaacccg ccagtgtttc ctcttagaga acaaaggctg
      421 cttatttctg aatccaagca accagactcg cgttttccgc tagagggagc gtctgatgcg
      481 gacataggag agaacgctgt attggtctac agattaagtc aaaacgagta tttttcttta
      541 gaaccaccaa tcaatagtaa gcaaactaaa agaccgtcac ttatattaaa gaaggttcta
      601 gatcgggaga aaaccccgga acttaatttg ctattaacag ccacagatgg gggaaaaccg
      661 gagctcacgg gtacagttca gctttgggtt cgtgtcttag atgttaacga caatgatcca
      721 gtgttcgatc atttagaata caaggtaaga ataatggaaa atgctgctaa agaaactctt
      781 gtcataacgt tgaacgccac ggatctagac gaaggtgcaa acgggcaact ggtatactct
      841 ttgatgtcca ttaagcccac tgggaggcat ttatttaccc tagatgaaaa aaatggagaa
      901 ttgagggtca acgggacttt agattatgaa gagaacaaat tgtatgaaat agaagtgctg
      961 gccacggata aaggaacacc tccaatggta ggtcactgtg tagtcttggt agaaatctta
     1021 gacaccaatg acaactcccc tgaagtgaca ttaacttcgc tgtccctccc agtaagagag
     1081 gatgcccagc caaatacagt cattgcttta attagcgtat ccgaccttga ttctggaatc
     1141 aatggccaag tgacctgctc tcttacaccc aatgtcccct tcaagattgt atccaccttt
     1201 aaaaattatt attctctggt actggatagc agtctggacc gcgagagagt gtcaacttat
     1261 gatttggttg tgatagcgcg ggacgggggc tcgccttcac tgtctgccac tgtcagcgtg
     1321 tccgtggaag tggctgacgt gaacgacaat gctccagtgt tcgcgcagcc tgaatacacg
     1381 gtgttcgtga aggagaacaa cccgcctgga gcgcacatct ttacagtgtc agcgatggat
     1441 gcggatgcgc aggagaacgc gctggtgtcc tactcgctgg tggagcggag ggtgggcgag
     1501 cgcttgctgt cgagctatgt gtctgtgcac gcggagagcg gcaaggtgtt cgcgctgcag
     1561 cctctggacc atgaggagct ggagctgctg cagttccagg tgagcgcgcg ggatgctggt
     1621 gtgcctgccc tgggcagcaa tgtgactctg caggtgtttg tgctggatga gaatgacaat
     1681 gcgcccacgc tgctgcctca tggagctgtt ggagctggtg gggcagtgag cgagcttgtg
     1741 tctcggtcgg tgggatcggg ccatgtagtc accaaggtgc gggcagtgga tgccgactct
     1801 ggttacaatg cttggctgtc atatgaagta cagttgggaa caggtggcgt acgcagcccc
     1861 ttccgcgtgg gtctgtacac gggtgagatc agcacgacgc gtgccttgga tgaggtggac
     1921 tctcctcggc agactctatt ggtgctggtg aaggaccatg gtgagccagc actgacagcc
     1981 actgcaactg ttttagtgtc tcttgtggaa agcggccaag ctccaaagtc cttttcacag
     2041 gcatcaggtc gtgcttcagc cccggaggca tcgctggtgg atgtcaacgt gtatttgatt
     2101 atcgccatct gcgcagtgtc cagcctgttg gtactcacgc tgctgctgta tacagcgctg
     2161 cgctgctcag cattgcctat ggtcaatgag gccactgggg ggcctggaaa gcccatgctg
     2221 gtgtgctcca gcgaggtggg gagctggtcc tactcacagc agaggcggca gagggtgtgc
     2281 tctggggaag ttcttcccaa gaccgacctc atggcattta gccccagcct acctcccaac
     2341 ctgggtagag atgaaaggga aagacaggag tcagagtcaa gtcaccctgg acagccccgg
     2401 cagcccaacc ctgactggcg ctactctgcc tcgctaagag caggcatgca cagctctgtg
     2461 cacctggagg aggctggcat tctacgggct ggtccaggag ggcctgatca gcagtggcca
     2521 acagtatcca gtgcaacacc agaacctgag gcaggagagg tgtcccctcc ggtgggcgcc
     2581 ggtgtcaaca gcaacagctg gacctttaaa tacggaccag gcaaccccaa acagtccggt
     2641 cccggtgagt tgccagacaa attcattatc ccaggatctc ctgcaatcat ctccatccgg
     2701 caggagcctg ctaacaacca aattgacaaa agcgatttta taaccttcgg caaaaaggag
     2761 gagaccaaga aaaagaagaa aaagaagaag ggtaacaaga cccaggagaa aaaagagaaa
     2821 gggaacagca cgacggacaa cagtgaccag tgaggccacc aaatggaaac aagccactta
     2881 gccagttttt gtaataatgg caaatctctc ccatgtagca actccccgct cctttctcct
     2941 atgacatgag ccctcagaaa tctgcagaaa gttccctgtg tctgtcttga tcgcatttaa
     3001 caggttttgt cttaaaaagc tttcctaagt ctggtgttaa ctctctctct ctccactctg
     3061 gcttgttttc agaacctaaa aagcagaccc aggtttcctt tctcccccgc cgcaaaggag
     3121 aagcttccca gccccgccag tgagagttgg actctctgcc ctgtgcttca agcatcctgt
     3181 cttgatgata tttgcagggc aggctgaaag gtattcaggt tgagcagttg ggtgtttgtg
     3241 gtcactgggt atgtgtggct accaagagtg ttggagagcc tggtattggc tgggatggtc
     3301 cagattagac tagttaacac aaggagggct ggggctcaaa ggcacatcaa caccgggagt
     3361 ctttcatctg gagggggaaa atgtgaaact tacaaggacc agactttctc aatctctcaa
     3421 ctagacatat gatggccatc ctctaacaga caaaaccatc cccaccggca aagctttagg
     3481 agcccctcaa gtgtgctggc tataacatca ctgtattcaa aacctgcagt atgcacacga
     3541 gccagcagtt caagcgttta acaagagggt cggccagggc aacagaagca gatctgatgt
     3601 gtttcctgta cacgtccttg tgctcacgct attaaaaatt cttttgcaca caatgtttat
     3661 gaaaaggtct catccttttc caacaacaca tatgcaaaag caaaagaaaa acccaagacc
     3721 tcactttatg ctgtttgttg tttgatagat ttattaaaaa gaaaagagaa agtcgatagc
     3781 tataaatctt taaaggaata tgatgaatac aatcccccca accttccctc aaaagagaat
     3841 ccagtctaca gccatttgaa atgatcgttg ctgctacaga agtgctttaa gagaattgcc
     3901 tggaacatct gtattatccc ggccacctgc caatcacagc tttactcttt caggtcactc
     3961 tggggctgcc tcttgcatgt attaattact aaatagaagg atctttctct cttttctaag
     4021 aaaaatgatg tgcactttga ttacacaacc ttctctaacc cacgatatca agacccagaa
     4081 actgaagaaa aatcttgttt tctcatgcat acagtgagca gacttttcat tcctctggtt
     4141 ctgtggttgt ctcggtgtgc tagcctacac ctccaccttg tttagctttc cttttctaga
     4201 acactctgaa ttgctaacct tactaacacc tatgatgtta cctgaatcaa tctcccatat
     4261 gtatgctgta tgctattata agactcctga gatatactta ctctgtgctt gtgtatgtga
     4321 atgttaatgc aactattacc tagagtgaac tttaagcttt attgttgaat gtaagcccat
     4381 tatatttcct tttgtacacc tgtggaaaag tggaatagtg ttttttttaa aaccattgtt
     4441 aatcagcttt tgtgtatgaa agacacagta aaatttcttt cttaaatcaa gatgctggtg
     4501 attcaaggaa ttttatttat ggtcagccaa gggctgtctc ttgccaagaa tcctgctggc
     4561 aagggaaaat ggataaagct ggtttttttt tttcctagta agaattctgg aataaatact
     4621 gaagaaagtc cctgagggta tgcaagcaca aaattgtacc aatctgacct ctttgaattt
     4681 gcagactgct ttgaaatgct atccggaata tcagcttgta gaaagtaata aaatttactg
     4741 ttaccataaa taagacattt taagtttatt gtgcacaact tagatgtttg attaattata
     4801 ttatctactt aaaagcatat aaaagaggta ggagtctgtt ttaaaaggca taaaaaatct
     4861 caaaaaaaaa aaacctgtct tgtctacttt tagcttcatt ctcccatatt ttgaagggtg
     4921 tgtaacttca gctctgcagg attgcatggg gtaaaactcg ttgacagcgc atgtgaacca
     4981 ttgctacatt gtaggttgtg atcattttgc cccactgaag cccatgtaac tgaccttacg
     5041 tgccttttga actaggagaa tcgggctata atttattaat gatgataatg ataatgtata
     5101 tgtacagcac tttttaacct tacaaagtgc tttccaattc gtgttagtta ttagttatta
     5161 cagctgtaag gataaaacac gtcatgtgga ttcattttta attggtgcta ttggtatttc
     5221 ctctgttctt gctaataaat ggaaatggtg gtgt
//
