LOCUS       NM_198117               5379 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus protocadherin alpha 2 (Pcdha2), mRNA.
ACCESSION   NM_198117
VERSION     NM_198117.2
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 5379)
  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 5379)
  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 5379)
  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 5379)
  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 5379)
  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 5379)
  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 5379)
  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 5379)
  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 5379)
  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 5379)
  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
            BC030897.1, AY013760.1 and AI850242.1.
            
            On Apr 29, 2009 this sequence version replaced NM_198117.1.
            
            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 :: AY013760.1, CV557792.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849384, SAMN01164131
                                           [ECO:0000348]
            ##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
            1-113               BC030897.1         1-113
            114-5361            AY013760.1         1-5248
            5362-5379           AI850242.1         1-18                c
FEATURES             Location/Qualifiers
     source          1..5379
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="18"
                     /map="18 19.46 cM"
     gene            1..5379
                     /gene="Pcdha2"
                     /note="protocadherin alpha 2"
                     /db_xref="GeneID:353234"
                     /db_xref="MGI:MGI:2681880"
     exon            1..2501
                     /gene="Pcdha2"
                     /inference="alignment:Splign:2.1.0"
     CDS             114..2960
                     /gene="Pcdha2"
                     /codon_start=1
                     /product="protocadherin alpha-2 precursor"
                     /protein_id="NP_932785.1"
                     /db_xref="CCDS:CCDS37775.1"
                     /db_xref="GeneID:353234"
                     /db_xref="MGI:MGI:2681880"
                     /translation="MPSLRGGPEVRQCLLLLLPFLAAWEAGNGQLHYSVPEEAKHGTF
                     VGRIAQDLGLELTELVPRLFRVASKDRGDLLEVNLQNGILFVNSRIDREELCGRSAEC
                     SIHLEVIVDRPLQVFHVEVEVRDINDNPPRFPMTEKTIQFSESRSLDSRFPLEGASDA
                     DIGVNALLSYKLSPSELFFLDVQTSDELSQSLFLVLGKSLDREEDAEVKLLLVATDGG
                     KPELTGTVQILIKVLDVNDNEPTFPQSVYKVQLLENTANGTLVMKLNASDADEGSNSE
                     IVYSLGSDVSSTTRTKFQIDPNSGEVRTKGELDYEERTSYEIQVIASDKGTPAMSGHC
                     KISVKLVDINDNTPEVSITSLSLPVQENAPLGAVIALISVSDRDSGVNGQVTCSLSPH
                     VPFKLVSTFKNYYSLVLDSALDREATADYKVMVTARDGGSPSLRATASVSVEVADVND
                     NAPVFAQPEYTVFVKENNPPGAHIFTVSAMDADAQENALVSYSLVERRVGERLLSSYV
                     SVHAESGKVFALQPLDHEELELLQFQVTARDAGVPALGSNVTLQVFVLDENDNAPLLL
                     PQGAVGVGGSVSELVPRSVGSGHVVTKVRAVDADSGYNAWLSYELQSTVGMRSLFRVG
                     LYTGEISTTRALDEVDAPRQRLLVLVKDHGEPSLTATATVLVSLVENSQAPKTSSRAL
                     VDAAGQEASLVTVNVYLVIAICAVSSLLVLTLLLYTALRCSAMPTDGACAPGRPMLVC
                     SSAVGSWSYSQQRRQRVCSGEGPPKTDLMAFSPSLSQGPESAEERQPPLEAEYLGKPR
                     QPNPDWRYSASLRAGMHSSVHLEEAGILRAGPGGPDQQWPTVSSATPEPEAGEVSPPV
                     GAGVNSNSWTFKYGPGNPKQSGPGELPDKFIIPGSPAIISIRQEPANNQIDKSDFITF
                     GKKEETKKKKKKKKGNKTQEKKEKGNSTTDNSDQ"
     exon            2502..2560
                     /gene="Pcdha2"
                     /inference="alignment:Splign:2.1.0"
     exon            2561..2649
                     /gene="Pcdha2"
                     /inference="alignment:Splign:2.1.0"
     exon            2650..5365
                     /gene="Pcdha2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      5341..5346
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Pcdha2"
                     /note="hexamer: AATAAA"
     polyA_site      5365
                     /gene="Pcdha2"
                     /note="major polyA site"
ORIGIN      
        1 ccagataaaa cgacaggaga agcagcagga tttgagcagg tgttagaact tatattttat
       61 tttatttaaa aaatgatcat ttaatttgat caactcacgg aggactagaa gtgatgcctt
      121 ctttgagagg gggcccagag gtcaggcagt gtctgctgct cttgcttcct ttcctcgcag
      181 cctgggaggc agggaacggc cagctccact actccgtccc cgaggaggcc aaacacggca
      241 cttttgtggg ccgcatcgcg caggacctgg ggctggagct gacggagctg gtgccccgcc
      301 tgttcagggt ggcttccaag gaccgcgggg accttctgga ggtaaatctg cagaatggca
      361 ttttgtttgt gaattctcgg atcgaccggg aggagctgtg cgggcggagc gcggagtgta
      421 gcatccacct ggaggtgatc gtggacaggc cgctgcaggt tttccacgtg gaggtggagg
      481 tgagggacat taacgacaac ccgccgcgat ttccaatgac agaaaaaact atccagtttt
      541 ccgaatctag gtcgcttgac tcaaggtttc ctttagaggg agcctctgat gcagatatcg
      601 gagtaaatgc tcttctgtcc tacaagctca gccccagtga gcttttcttt ctagatgttc
      661 aaacaagcga cgaactaagc caatctctgt ttcttgtgct gggaaaatct ctggacagag
      721 aggaggatgc ggaggtgaaa ttgttactgg tagctactga tggaggcaag cctgagctca
      781 ccggcactgt tcaaatactc atcaaggtgt tagatgtgaa tgacaacgaa cctactttcc
      841 cccaatccgt ttacaaagta cagttgttag agaacactgc aaacggaacc ttagtgatga
      901 aattaaatgc ttctgatgca gatgaaggat caaacagcga gattgtgtat tcactcggta
      961 gtgatgtgtc ttccaccaca cggactaagt ttcaaatcga ccccaactca ggagaagtca
     1021 gaactaaggg agagttagat tatgaagaaa ggacatccta tgaaatccag gtcattgcat
     1081 ctgacaaggg aaccccagcg atgtcaggac attgtaaaat ttcagtaaaa cttgtggata
     1141 tcaatgacaa tacgccagaa gtctcaataa cgtctctctc actacccgtg caagagaatg
     1201 ctcccctggg tgctgtcatc gccctcatct cagtgtcaga tcgtgactcg ggagtcaatg
     1261 ggcaggtgac ctgctccctg agtcctcatg tccccttcaa gctggtgtcc actttcaaga
     1321 attactattc tctcgtgctg gacagcgcct tggaccggga agccacagct gactataagg
     1381 taatggtgac agcgcgggat gggggctcgc cctcgctacg ggccacggcc agcgtgtctg
     1441 tggaggtggc tgacgtgaac gacaatgctc cagtgttcgc tcagcccgaa tacaccgtgt
     1501 ttgtgaagga gaacaatcca ccaggagcgc acatcttcac ggtgtcagcg atggatgctg
     1561 acgcacagga gaatgcgctg gtgtcctact cgctggtgga gcggagggtg ggcgagcgct
     1621 tgctgtctag ctatgtgtct gtgcatgcgg agagcggcaa ggtgttcgct ctgcagcctc
     1681 tggaccatga ggagctggag ctgctgcagt ttcaggtgac tgcgagggat gctggtgtgc
     1741 ctgccctggg cagcaatgtg actctgcagg tgtttgtgct ggatgagaat gacaatgcac
     1801 ccttgctgct gcctcaggga gctgtgggag ttggcggctc agtgagcgag cttgtaccta
     1861 ggtcagtggg ttcgggccat gtagtcacca aggtgcgtgc cgtggatgcg gattctggtt
     1921 acaacgcgtg gctgtcatat gaactgcaat ccacagtggg catgcgtagc ctgttccgcg
     1981 tgggtctgta tacaggcgag atcagcacca cgcgagccct agatgaagtg gatgcgccac
     2041 gccagcgcct gctagtgttg gtgaaggacc atggtgagcc ttcgctgact gccacagcca
     2101 cagtgttagt ttctctagtt gagaatagtc aagctccaaa aacttcatca agagcgttgg
     2161 tagatgctgc tggccaagag gcgtctctgg tgactgttaa cgtgtacctg gtcatcgcca
     2221 tctgcgcggt gtccagcctg ttggtgctca cgctgctgct gtacacagcg ctgcgctgct
     2281 cagcgatgcc cactgatgga gcctgtgctc cggggaggcc catgctggtg tgctccagcg
     2341 cggtggggag ctggtcatac tcgcagcaga ggcgacagag agtgtgctct ggagaaggcc
     2401 cccctaagac tgatctcatg gccttcagcc ctagcctatc ccaaggtccg gaatcagcag
     2461 aagagagaca accaccctta gaggccgaat acttaggaaa gccccggcag cccaaccctg
     2521 actggcgcta ctctgcctcg ctaagagcag gcatgcacag ctctgtgcac ctggaggagg
     2581 ctggcattct acgggctggt ccaggagggc ctgatcagca gtggccaaca gtatccagtg
     2641 caacaccaga acctgaggca ggagaggtgt cccctccggt gggcgccggt gtcaacagca
     2701 acagctggac ctttaaatac ggaccaggca accccaaaca gtccggtccc ggtgagttgc
     2761 cagacaaatt cattatccca ggatctcctg caatcatctc catccggcag gagcctgcta
     2821 acaaccaaat tgacaaaagc gattttataa ccttcggcaa aaaggaggag accaagaaaa
     2881 agaagaaaaa gaagaagggt aacaagaccc aggagaaaaa agagaaaggg aacagcacga
     2941 cggacaacag tgaccagtga ggccaccaaa tggaaacaag ccacttagcc agtttttgta
     3001 ataatggcaa atctctccca tgtagcaact ccccgctcct ttctcctatg acatgagccc
     3061 tcagaaatct gcagaaagtt ccctgtgtct gtcttgatcg catttaacag gttttgtctt
     3121 aaaaagcttt cctaagtctg gtgttaactc tctctctctc cactctggct tgttttcaga
     3181 acctaaaaag cagacccagg tttcctttct cccccgccgc aaaggagaag cttcccagcc
     3241 ccgccagtga gagttggact ctctgccctg tgcttcaagc atcctgtctt gatgatattt
     3301 gcagggcagg ctgaaaggta ttcaggttga gcagttgggt gtttgtggtc actgggtatg
     3361 tgtggctacc aagagtgttg gagagcctgg tattggctgg gatggtccag attagactag
     3421 ttaacacaag gagggctggg gctcaaaggc acatcaacac cgggagtctt tcatctggag
     3481 ggggaaaatg tgaaacttac aaggaccaga ctttctcaat ctctcaacta gacatatgat
     3541 ggccatcctc taacagacaa aaccatcccc accggcaaag ctttaggagc ccctcaagtg
     3601 tgctggctat aacatcactg tattcaaaac ctgcagtatg cacacgagcc agcagttcaa
     3661 gcgtttaaca agagggtcgg ccagggcaac agaagcagat ctgatgtgtt tcctgtacac
     3721 gtccttgtgc tcacgctatt aaaaattctt ttgcacacaa tgtttatgaa aaggtctcat
     3781 ccttttccaa caacacatat gcaaaagcaa aagaaaaacc caagacctca ctttatgctg
     3841 tttgttgttt gatagattta ttaaaaagaa aagagaaagt cgatagctat aaatctttaa
     3901 aggaatatga tgaatacaat ccccccaacc ttccctcaaa agagaatcca gtctacagcc
     3961 atttgaaatg atcgttgctg ctacagaagt gctttaagag aattgcctgg aacatctgta
     4021 ttatcccggc cacctgccaa tcacagcttt actctttcag gtcactctgg ggctgcctct
     4081 tgcatgtatt aattactaaa tagaaggatc tttctctctt ttctaagaaa aatgatgtgc
     4141 actttgatta cacaaccttc tctaacccac gatatcaaga cccagaaact gaagaaaaat
     4201 cttgttttct catgcataca gtgagcagac ttttcattcc tctggttctg tggttgtctc
     4261 ggtgtgctag cctacacctc caccttgttt agctttcctt ttctagaaca ctctgaattg
     4321 ctaaccttac taacacctat gatgttacct gaatcaatct cccatatgta tgctgtatgc
     4381 tattataaga ctcctgagat atacttactc tgtgcttgtg tatgtgaatg ttaatgcaac
     4441 tattacctag agtgaacttt aagctttatt gttgaatgta agcccattat atttcctttt
     4501 gtacacctgt ggaaaagtgg aatagtgttt tttttaaaac cattgttaat cagcttttgt
     4561 gtatgaaaga cacagtaaaa tttctttctt aaatcaagat gctggtgatt caaggaattt
     4621 tatttatggt cagccaaggg ctgtctcttg ccaagaatcc tgctggcaag ggaaaatgga
     4681 taaagctggt tttttttttt cctagtaaga attctggaat aaatactgaa gaaagtccct
     4741 gagggtatgc aagcacaaaa ttgtaccaat ctgacctctt tgaatttgca gactgctttg
     4801 aaatgctatc cggaatatca gcttgtagaa agtaataaaa tttactgtta ccataaataa
     4861 gacattttaa gtttattgtg cacaacttag atgtttgatt aattatatta tctacttaaa
     4921 agcatataaa agaggtagga gtctgtttta aaaggcataa aaaatctcaa aaaaaaaaaa
     4981 cctgtcttgt ctacttttag cttcattctc ccatattttg aagggtgtgt aacttcagct
     5041 ctgcaggatt gcatggggta aaactcgttg acagcgcatg tgaaccattg ctacattgta
     5101 ggttgtgatc attttgcccc actgaagccc atgtaactga ccttacgtgc cttttgaact
     5161 aggagaatcg ggctataatt tattaatgat gataatgata atgtatatgt acagcacttt
     5221 ttaaccttac aaagtgcttt ccaattcgtg ttagttatta gttattacag ctgtaaggat
     5281 aaaacacgtc atgtggattc atttttaatt ggtgctattg gtatttcctc tgttcttgct
     5341 aataaatgga aatggtggtg tgaaaaaaaa aaaaaaaaa
//
