LOCUS       NM_001404367            3332 bp    mRNA    linear   ROD 26-JUN-2024
DEFINITION  Mus musculus protocadherin 18 (Pcdh18), transcript variant 2, mRNA.
ACCESSION   NM_001404367
VERSION     NM_001404367.1
KEYWORDS    RefSeq.
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 3332)
  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 3332)
  AUTHORS   Narayanan,R., Pham,L., Kerimoglu,C., Watanabe,T., Castro
            Hernandez,R., Sokpor,G., Ulmke,P.A., Kiszka,K.A., Tonchev,A.B.,
            Rosenbusch,J., Seong,R.H., Teichmann,U., Frahm,J., Fischer,A.,
            Bonn,S., Stoykova,A., Staiger,J.F. and Tuoc,T.
  TITLE     Chromatin Remodeling BAF155 Subunit Regulates the Genesis of Basal
            Progenitors in Developing Cortex
  JOURNAL   iScience 4, 109-126 (2018)
   PUBMED   30240734
REFERENCE   3  (bases 1 to 3332)
  AUTHORS   Frey,A.B.
  TITLE     The Inhibitory Signaling Receptor Protocadherin-18 Regulates
            Tumor-Infiltrating CD8+ T-cell Function
  JOURNAL   Cancer Immunol Res 5 (10), 920-928 (2017)
   PUBMED   28874354
REFERENCE   4  (bases 1 to 3332)
  AUTHORS   Piprek,R.P., Kolasa,M., Podkowa,D., Kloc,M. and Kubiak,J.Z.
  TITLE     Cell adhesion molecules expression pattern indicates that somatic
            cells arbitrate gonadal sex of differentiating bipotential fetal
            mouse gonad
  JOURNAL   Mech Dev 147, 17-27 (2017)
   PUBMED   28760667
REFERENCE   5  (bases 1 to 3332)
  AUTHORS   Bibollet-Bahena,O., Okafuji,T., Hokamp,K., Tear,G. and
            Mitchell,K.J.
  TITLE     A dual-strategy expression screen for candidate connectivity labels
            in the developing thalamus
  JOURNAL   PLoS One 12 (5), e0177977 (2017)
   PUBMED   28558017
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3332)
  AUTHORS   Pavlinkova,G., Salbaum,J.M. and Kappen,C.
  TITLE     Maternal diabetes alters transcriptional programs in the developing
            embryo
  JOURNAL   BMC Genomics 10, 274 (2009)
   PUBMED   19538749
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 3332)
  AUTHORS   Bulfone,A., Carotenuto,P., Faedo,A., Aglio,V., Garzia,L.,
            Bello,A.M., Basile,A., Andre,A., Cocchia,M., Guardiola,O.,
            Ballabio,A., Rubenstein,J.L. and Zollo,M.
  TITLE     Telencephalic embryonic subtractive sequences: a unique collection
            of neurodevelopmental genes
  JOURNAL   J Neurosci 25 (33), 7586-7600 (2005)
   PUBMED   16107646
REFERENCE   8  (bases 1 to 3332)
  AUTHORS   Okazaki,N., F-Kikuno,R., Ohara,R., Inamoto,S., Koseki,H.,
            Hiraoka,S., Saga,Y., Seino,S., Nishimura,M., Kaisho,T., Hoshino,K.,
            Kitamura,H., Nagase,T., Ohara,O. and Koga,H.
  TITLE     Prediction of the coding sequences of mouse homologues of KIAA
            gene: IV. The complete nucleotide sequences of 500 mouse
            KIAA-homologous cDNAs identified by screening of terminal sequences
            of cDNA clones randomly sampled from size-fractionated libraries
  JOURNAL   DNA Res 11 (3), 205-218 (2004)
   PUBMED   15368895
REFERENCE   9  (bases 1 to 3332)
  AUTHORS   Homayouni,R., Rice,D.S. and Curran,T.
  TITLE     Disabled-1 interacts with a novel developmentally regulated
            protocadherin
  JOURNAL   Biochem Biophys Res Commun 289 (2), 539-547 (2001)
   PUBMED   11716507
REFERENCE   10 (bases 1 to 3332)
  AUTHORS   Piao,Y., Ko,N.T., Lim,M.K. and Ko,M.S.
  TITLE     Construction of long-transcript enriched cDNA libraries from
            submicrogram amounts of total RNAs by a universal PCR amplification
            method
  JOURNAL   Genome Res 11 (9), 1553-1558 (2001)
   PUBMED   11544199
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC101940.17.
            
            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 :: SRR17253011.10162933.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164133, SAMN01164134
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2897              AC101940.17        72337-75233         c
            2898-2986           AC101940.17        71499-71587         c
            2987-3150           AC101940.17        71243-71406         c
            3151-3332           AC101940.17        70376-70557         c
FEATURES             Location/Qualifiers
     source          1..3332
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="3"
                     /map="3 21.67 cM"
     gene            1..3332
                     /gene="Pcdh18"
                     /gene_synonym="3110038E07Rik; PCDH68L"
                     /note="protocadherin 18"
                     /db_xref="GeneID:73173"
                     /db_xref="MGI:MGI:1920423"
     exon            1..2897
                     /gene="Pcdh18"
                     /gene_synonym="3110038E07Rik; PCDH68L"
                     /inference="alignment:Splign:2.1.0"
     CDS             411..3179
                     /gene="Pcdh18"
                     /gene_synonym="3110038E07Rik; PCDH68L"
                     /note="isoform 2 precursor is encoded by transcript
                     variant 2"
                     /codon_start=1
                     /product="protocadherin 18 isoform 2 precursor"
                     /protein_id="NP_001391296.1"
                     /db_xref="GeneID:73173"
                     /db_xref="MGI:MGI:1920423"
                     /translation="MHQMNTKMHFRFALALLMAFFSHDVLAKNLKYRIYEEQRVGSVI
                     ARLSEDVADVLLKLPNPSAVRFRAMPRGNSPLLVVNENTGEISIGAKIDREQLCQKNL
                     NCSIEFDVLTLPTEHLQLFHIEVDVLDINDNSPQFSRPVIPIEISESAAVGTRIPLDS
                     AFDPDVGENSLHTYSLSANDYFNIEVRTRTDGAKYAELIVVKELDRELKASYELQLTA
                     SDMGVPQRSGSSILKISISDSNDNSPAFEQPSYTIQLLENSPVGTLLLDLNATDPDEG
                     ANGRIVYSFSSHVSPKIIETFKIDSEKGHLTLFKPVDYEITKSYEIDVQAQDLGPNSI
                     PAHCKIIIKVVDVNDNKPEISINLMSPGKEEVSYVFEGDPIDTFVAIVRVQDKDSGLN
                     GEIICKLHGHGHFKLQKTYENNYLILTNATLDREKRSEYSLTVIAEDKGTPSLSSVRH
                     FTVQINDINDNPPRFQRSRYEFVISENNSPGAYITTVTATDPDLGENGHVTYTILESF
                     VLGSSITTYVTIDPSNGAIYALRIFDHEEVSQITFVVEARDGGSQKQLSSNTTVVLTI
                     IDENDNVPVVIGPAMHNNTAEISIPKGAESGFHVTRIRVVDRDSGANAEFSCSIVSGN
                     EENIFIMDPRSCDIHTNVSMESIPSAEWALSVIIQDKGSPPLHTKVLLRCMVFDYAES
                     VTSTAMTSVSRASLDVSMIIIISLGAICAVLLVIMVLFATRCNREKKDTRSYNCRVAE
                     STYQHHPKRPSRQIHKGDITLVPTINGTLPIRSHHRSSPSSSPTLERGQMGSRQSHNS
                     HQSLNSLVTISSNHVPENFSLELTHATPAVEQVSQLLSMLHQGQYQPRPSFRGNKYSR
                     SYRYALQDMDKFSLKDSGRGDSEAGDSDYDLGRDSPIDRLLGEGFSDLFLTDGRIPAG
                     TWIQLSKC"
     exon            2898..2986
                     /gene="Pcdh18"
                     /gene_synonym="3110038E07Rik; PCDH68L"
                     /inference="alignment:Splign:2.1.0"
     exon            2987..3150
                     /gene="Pcdh18"
                     /gene_synonym="3110038E07Rik; PCDH68L"
                     /inference="alignment:Splign:2.1.0"
     exon            3151..3332
                     /gene="Pcdh18"
                     /gene_synonym="3110038E07Rik; PCDH68L"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3307..3312
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Pcdh18"
                     /gene_synonym="3110038E07Rik; PCDH68L"
                     /note="hexamer: AATACA"
     polyA_site      3332
                     /gene="Pcdh18"
                     /gene_synonym="3110038E07Rik; PCDH68L"
                     /note="major polyA site"
ORIGIN      
        1 agactggagt cagcaatcac cggtgtttag tctgcagcgg agcagagaaa aggaaagggg
       61 ggaaaatcaa gaatcgcccg ggaaacacag actgcagact ccgccagcac cctgcaatag
      121 atggggacgg agtccacgcg gggagccagg ccgaggtgac acgctgctcc cagccaggag
      181 gaccagcggc cacccctacc aggaagggac ttcacgctcc tatctggaag tcgccaaacg
      241 gtgtgtatga aaactgaagt ttgcgagctg tttaattgct gtgtgattaa gagtcgcttt
      301 caagactctg agacccgatg tggcttagag ctctgagtgg ctgggaggaa gttgaaggga
      361 ttgctgggct cttctaactc gccctgagaa gggaatctag caactgacca atgcaccaaa
      421 tgaatactaa aatgcacttt agatttgcac ttgcacttct gatggcgttt ttcagccacg
      481 atgtcctggc taagaatctg aaatacagga tttatgagga gcagagggtc ggatcggtaa
      541 ttgctagact atcagaagat gtggctgatg ttttattgaa gctaccaaat ccttctgctg
      601 ttcgttttcg agccatgcca cgggggaatt ctcctctcct ggtcgtaaat gagaataccg
      661 gagaaatcag cataggggct aaaattgacc gcgagcaact atgccaaaaa aacttgaact
      721 gttcgataga gtttgatgtg ctcactctgc cgaccgagca tctgcagctg ttccacattg
      781 aagtggacgt gctggacatt aatgacaatt ccccccaatt ctcgagaccc gtcattccca
      841 ttgagatatc ggagagcgca gcagttggga ctcgtatccc cctggacagt gcgttcgacc
      901 cagatgttgg ggaaaattcc ctccacacct actcgctctc tgctaatgat tattttaata
      961 tcgaagtgcg aaccaggaca gacggggcca agtacgctga actcatagtg gtgaaagagt
     1021 tggatcggga gctgaaggct agctacgagc ttcagctcac cgcctccgac atgggagtgc
     1081 ctcagaggtc tggctcctcc atcctgaaaa tcagcatttc ggattccaac gacaacagcc
     1141 cggcctttga gcagccttct tacacaatac aactcttaga aaactcccca gttggaacct
     1201 tgctccttga tctaaatgcc accgatccag atgagggcgc taatgggaga attgtgtatt
     1261 ctttcagcag tcatgtgtct cccaaaatta tagagacttt taagatcgac tcagaaaaag
     1321 gccacttgac tcttttcaag ccagtggatt atgaaatcac caagtcctat gagatagacg
     1381 ttcaagccca agatttgggt cccaattcca ttcctgctca ttgcaaaatt ataattaagg
     1441 ttgtggatgt caatgacaat aaacctgaaa ttagcataaa tctcatgtcc cctggaaaag
     1501 aagaagtatc ttatgtcttt gaaggggatc ccattgatac attcgttgct atcgtcaggg
     1561 ttcaagacaa ggattctggg ctgaatgggg aaataatctg taagcttcat gggcatggac
     1621 attttaaact tcagaagaca tatgaaaata actacttgat cttgaccaat gccactctgg
     1681 atagagaaaa gagatctgag tatagtttga ctgtgattgc tgaggacaag ggaacaccaa
     1741 gcctctcctc agtgagacat tttactgttc aaatcaatga cataaatgac aatccacctc
     1801 gcttccagag gagccgatat gaatttgtca tctcagagaa taattcacca ggggcgtata
     1861 tcaccacagt tacagccact gatccagatc ttggtgaaaa cggacatgtg acatacacca
     1921 ttttggagag ttttgtcttg ggaagttcca tcaccacgta tgtaaccatt gacccctcta
     1981 atggcgccat ctatgccctc aggatctttg atcatgaaga agtgagtcag atcacttttg
     2041 tggtggaagc cagggatgga gggagtcaga agcaactctc cagcaacacc accgttgtgc
     2101 tgaccatcat tgatgagaat gacaatgtcc ctgtggttat agggcctgca atgcacaata
     2161 atactgcaga aatatccatc cccaaaggag ctgaaagtgg ttttcatgtc acaagaataa
     2221 gggtggtcga cagggactct ggtgccaatg ctgaattcag ctgctccata gtatctggta
     2281 atgaggaaaa catctttatc atggacccta ggtcatgtga cattcatacc aacgtcagca
     2341 tggaatccat tccctctgcg gaatgggcac tctcagttat catccaggac aagggcagtc
     2401 ctcctctgca caccaaagtc cttctgaggt gcatggtctt tgactatgca gaatctgtga
     2461 caagcacagc catgacctct gtcagccgcg catccttgga tgtgtccatg atcataatta
     2521 tttccttggg agcaatttgt gctgtgttgc tggttattat ggtcctgttt gcaacgaggt
     2581 gtaatagaga aaagaaagac accagatcct acaactgcag ggtggcagaa tccacgtacc
     2641 agcatcatcc taaaaggcca tccaggcaga ttcacaaagg agacatcaca ctggtaccca
     2701 ccatcaatgg cactctgccc atcagatctc accacagatc ctccccatct tcatccccaa
     2761 ccttggagag gggacaaatg ggcagccgcc agagtcacaa cagtcaccag tcactcaaca
     2821 gtttggtgac catctcatca aaccacgtgc cagagaattt ttcattagaa ctcacccacg
     2881 ccactcctgc tgttgagcag gtctcgcagc ttctctccat gcttcaccag gggcaatatc
     2941 agccacggcc aagttttcga ggaaacaaat attccaggag ctatagatat gcccttcaag
     3001 acatggataa atttagcctg aaagacagtg gccgtggaga tagcgaagca ggagatagcg
     3061 attatgattt ggggcgcgat tctccgatag acaggctcct gggagaagga ttcagtgacc
     3121 tcttcctcac ggacgggaga attccagcag gaacttggat ccaactgagc aaatgctgag
     3181 aagatcagta gctgccctgt tgctaggggc tgtagaaaga aatcaacact taggagtact
     3241 gaagtctgcc tctgactgtc cacacgtctt aattcactga ttgtcaaccc aatgactgcc
     3301 attcgcaata cacgtaggaa aaaggaacaa aa
//
