LOCUS       NM_001145204            6749 bp    mRNA    linear   PRI 06-JUN-2024
DEFINITION  Homo sapiens shisa family member 9 (SHISA9), transcript variant 1,
            mRNA.
ACCESSION   NM_001145204
VERSION     NM_001145204.3
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 6749)
  AUTHORS   Deng,X., Sabino,E.C., Cunha-Neto,E., Ribeiro,A.L., Ianni,B.,
            Mady,C., Busch,M.P. and Seielstad,M.
  CONSRTM   REDSII Chagas Study Group from the NHLBI Retrovirus Epidemiology
            Donor Study-II Component International
  TITLE     Genome wide association study (GWAS) of Chagas cardiomyopathy in
            Trypanosoma cruzi seropositive subjects
  JOURNAL   PLoS One 8 (11), e79629 (2013)
   PUBMED   24324551
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 6749)
  AUTHORS   Ong,B.A., Li,J., McDonough,J.M., Wei,Z., Kim,C., Chiavacci,R.,
            Mentch,F., Caboot,J.B., Spergel,J., Allen,J.L., Sleiman,P.M. and
            Hakonarson,H.
  TITLE     Gene network analysis in a pediatric cohort identifies novel lung
            function genes
  JOURNAL   PLoS One 8 (9), e72899 (2013)
   PUBMED   24023788
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 6749)
  AUTHORS   Wu,J.H., Lemaitre,R.N., Manichaikul,A., Guan,W., Tanaka,T., Foy,M.,
            Kabagambe,E.K., Djousse,L., Siscovick,D., Fretts,A.M., Johnson,C.,
            King,I.B., Psaty,B.M., McKnight,B., Rich,S.S., Chen,Y.D.,
            Nettleton,J.A., Tang,W., Bandinelli,S., Jacobs,D.R. Jr.,
            Browning,B.L., Laurie,C.C., Gu,X., Tsai,M.Y., Steffen,L.M.,
            Ferrucci,L., Fornage,M. and Mozaffarian,D.
  TITLE     Genome-wide association study identifies novel loci associated with
            concentrations of four plasma phospholipid fatty acids in the de
            novo lipogenesis pathway: results from the Cohorts for Heart and
            Aging Research in Genomic Epidemiology (CHARGE) consortium
  JOURNAL   Circ Cardiovasc Genet 6 (2), 171-183 (2013)
   PUBMED   23362303
REFERENCE   4  (bases 1 to 6749)
  AUTHORS   Adkins,D.E., Aberg,K., McClay,J.L., Bukszar,J., Zhao,Z., Jia,P.,
            Stroup,T.S., Perkins,D., McEvoy,J.P., Lieberman,J.A., Sullivan,P.F.
            and van den Oord,E.J.
  TITLE     Genomewide pharmacogenomic study of metabolic side effects to
            antipsychotic drugs
  JOURNAL   Mol Psychiatry 16 (3), 321-332 (2011)
   PUBMED   20195266
REFERENCE   5  (bases 1 to 6749)
  AUTHORS   von Engelhardt,J., Mack,V., Sprengel,R., Kavenstock,N., Li,K.W.,
            Stern-Bach,Y., Smit,A.B., Seeburg,P.H. and Monyer,H.
  TITLE     CKAMP44: a brain-specific protein attenuating short-term synaptic
            plasticity in the dentate gyrus
  JOURNAL   Science 327 (5972), 1518-1522 (2010)
   PUBMED   20185686
  REMARK    GeneRIF: Functionally characterizes the homologous mouse gene.
REFERENCE   6  (bases 1 to 6749)
  AUTHORS   O'Donovan,M.C., Craddock,N., Norton,N., Williams,H., Peirce,T.,
            Moskvina,V., Nikolov,I., Hamshere,M., Carroll,L., Georgieva,L.,
            Dwyer,S., Holmans,P., Marchini,J.L., Spencer,C.C., Howie,B.,
            Leung,H.T., Hartmann,A.M., Moller,H.J., Morris,D.W., Shi,Y.,
            Feng,G., Hoffmann,P., Propping,P., Vasilescu,C., Maier,W.,
            Rietschel,M., Zammit,S., Schumacher,J., Quinn,E.M., Schulze,T.G.,
            Williams,N.M., Giegling,I., Iwata,N., Ikeda,M., Darvasi,A.,
            Shifman,S., He,L., Duan,J., Sanders,A.R., Levinson,D.F.,
            Gejman,P.V., Cichon,S., Nothen,M.M., Gill,M., Corvin,A.,
            Rujescu,D., Kirov,G., Owen,M.J., Buccola,N.G., Mowry,B.J.,
            Freedman,R., Amin,F., Black,D.W., Silverman,J.M., Byerley,W.F. and
            Cloninger,C.R.
  CONSRTM   Molecular Genetics of Schizophrenia Collaboration
  TITLE     Identification of loci associated with schizophrenia by genome-wide
            association and follow-up
  JOURNAL   Nat Genet 40 (9), 1053-1055 (2008)
   PUBMED   18677311
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC092324.3, DC375222.1, AK299610.1, AC009134.6 and H20826.1.
            
            On Nov 23, 2018 this sequence version replaced NM_001145204.2.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1). This RefSeq contains
            an in-frame start site 41 codons upstream from the currently
            annotated site but is not being annotated as a start site since it
            is in a weak Kozak sequence context. Also, use of the upstream AUG
            would eliminate the signal peptide.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMEA2145743,
                              SAMEA2154665 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: downstream AUG is associated
                                                with N-terminal localization
                                                signal
            MANE Ensembl match               :: ENST00000558583.3/
                                                ENSP00000454014.2
            RefSeq Select criteria           :: based on conservation,
                                                expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-22                AC092324.3         38401-38422         c
            23-115              DC375222.1         1-93
            116-685             AC092324.3         37738-38307         c
            686-2042            AK299610.1         94-1450
            2043-6512           AC009134.6         8611-13080          c
            6513-6749           H20826.1           12-248              c
FEATURES             Location/Qualifiers
     source          1..6749
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="16"
                     /map="16p13.12"
     gene            1..6749
                     /gene="SHISA9"
                     /gene_synonym="CKAMP44"
                     /note="shisa family member 9"
                     /db_xref="GeneID:729993"
                     /db_xref="HGNC:HGNC:37231"
                     /db_xref="MIM:613346"
     exon            1..1030
                     /gene="SHISA9"
                     /gene_synonym="CKAMP44"
                     /inference="alignment:Splign:2.1.0"
     CDS             468..1742
                     /gene="SHISA9"
                     /gene_synonym="CKAMP44"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; cystine-knot AMPAR modulating protein; protein
                     shisa-9; shisa homolog 9"
                     /codon_start=1
                     /product="protein shisa-9 isoform 1 precursor"
                     /protein_id="NP_001138676.2"
                     /db_xref="CCDS:CCDS45417.2"
                     /db_xref="GeneID:729993"
                     /db_xref="HGNC:HGNC:37231"
                     /db_xref="MIM:613346"
                     /translation="MRRVLRLLLGCFLTELCARVCRAQERAGHGQLAQLGGVLLLAGG
                     NRSGAASGEASEGAEASDAPPTRAPTPDFCRGYFDVMGQWDPPFNCSSGDFIFCCGTC
                     GFRFCCTFKKRRLNQSTCTNYDTPLWLNTGKPPARKDDPLHDPTKDKTNLIVYIICGV
                     VAVMVLVGIFTKLGLEKAHRPQREHMSRALADVMRPQGHCNTDHMERDLNIVVHVQHY
                     ENMDTRTPINNLHATQMNNAVPTSPLLQQMGHPHSYPNLGQISNPYEQQPPGKELNKY
                     ASLKAVGSSDGDWAVSTLKSPKADKVNDDFYTKRRHLAELAAKGNLPLHPVRVEDEPR
                     AFSPEHGPAKQNGQKSRTNKMPPHPLAYTSTTNFKGWDPNEQSLRRQAYSNKGKLGTA
                     ETGSSDPLGTRPQHYPPPQPYFITNSKTEVTV"
     exon            1031..1158
                     /gene="SHISA9"
                     /gene_synonym="CKAMP44"
                     /inference="alignment:Splign:2.1.0"
     exon            1159..1314
                     /gene="SHISA9"
                     /gene_synonym="CKAMP44"
                     /inference="alignment:Splign:2.1.0"
     exon            1315..1362
                     /gene="SHISA9"
                     /gene_synonym="CKAMP44"
                     /inference="alignment:Splign:2.1.0"
     exon            1363..6749
                     /gene="SHISA9"
                     /gene_synonym="CKAMP44"
                     /inference="alignment:Splign:2.1.0"
     regulatory      6729..6734
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SHISA9"
                     /gene_synonym="CKAMP44"
                     /note="hexamer: AATAAA"
     polyA_site      6749
                     /gene="SHISA9"
                     /gene_synonym="CKAMP44"
                     /note="major polyA site"
ORIGIN      
        1 attccacaag tgtcgcttcg ctctcttcag cgcacttggc gagctggtga ggtgagaggg
       61 atactgcgag agggctaggg gcggccagtc cggggctgcc ggccaaggct aggcgctgcc
      121 agcccgattc tcctctgctc tccacccccg cctcacccag tggccggccg gacctgcacc
      181 ccgcgcttga ccccgctcat cctccccccg cccggccggg cgcgctcctc cccggccggc
      241 ccctcggcgc gcggcgcgct ggaggcgaac gcgggctgag gcgaacgcgg gctgagccga
      301 gcgcagtggc cgccgaccac cgagcgcccc gcgccgctcc ctgcatgtgc ggcccgcggc
      361 ggctcgcagc tcccggcagc agcctcggca gcttcggccg cgcctcgaga ggcggccgca
      421 gaggctccag cggcggccga gcggccgagc ccgggctggg agacaccatg cgccgcgtcc
      481 ttcggctgct cctcggttgc ttcctcaccg agctgtgcgc ccgcgtgtgc cgggcgcagg
      541 agcgagcggg acacgggcag ctggcgcaac tgggcggcgt gttgctgctg gcggggggca
      601 accgctccgg ggccgcctcc ggagaggcca gcgagggcgc tgaggcatcg gacgcgcccc
      661 cgacccgggc gcccacgccg gacttctgcc ggggctactt cgatgtcatg ggccagtggg
      721 acccgccgtt caactgcagc tcgggcgact tcatcttctg ctgcgggact tgtggcttcc
      781 ggttctgctg cacgtttaag aagcggcgac tgaaccaaag cacctgcacc aactacgaca
      841 cgccgctctg gctcaacacc ggcaagcccc ccgcccgcaa ggacgacccc ttgcacgacc
      901 ccaccaagga caagaccaac ctgatcgtct acatcatctg cggggtggtg gccgtcatgg
      961 tgctcgtggg catcttcacc aagctggggc tggagaaagc gcaccggccc caaagggagc
     1021 acatgtccag ggcccttgcg gatgtcatga gaccacaggg ccactgcaac actgatcaca
     1081 tggagagaga cctaaacatc gttgtccacg tccagcatta tgagaacatg gacacgagaa
     1141 cccccataaa taatcttcat gccacccaga tgaacaacgc agtgcccacc tctcctctgc
     1201 tccagcagat gggccatcca cattcgtacc cgaacctggg ccagatctcc aacccctatg
     1261 aacagcagcc accaggaaaa gagctcaaca agtacgcctc cttaaaggca gtcggaagtt
     1321 ctgatggtga ctgggcagta tcgacactta agtcaccaaa agctgacaag gtcaatgacg
     1381 acttctacac caagcgacgg cacctggctg agctggctgc caaggggaac ttacctctgc
     1441 accccgtaag agtggaggac gagccccggg ccttcagccc tgagcacggt cctgccaagc
     1501 agaatggaca gaagtcccgc accaacaaga tgcccccaca tcccctggcc tacacctcta
     1561 ccaccaactt taagggctgg gaccccaacg agcagtccct ccggcggcag gcttacagca
     1621 acaagggcaa gcttggcacg gccgagacag gctccagcga ccccttggga actcgccccc
     1681 agcactaccc acccccacag ccatacttca tcaccaacag caaaacagaa gtgactgtct
     1741 gagctttcac cacagggagc accctggaga ccacactcaa ctgagagagg caaaaaacaa
     1801 ccccgcccac accctcccca tcctccccta atacatgcgt ccacacactc actctcaaca
     1861 agaaccaact ctaaacctac tggggacaca gagtcgcgct tttcctaggt catgcctgta
     1921 acgtgtcggc gggcagctga gaaagaccga agcgtggaca ttcagcaata cagcaaaggg
     1981 gaaaatgagg cacactcttt ccacttcagg cccaagatgg ccaactcaca tgcccaaacc
     2041 gtggggctga gttttctttt cctcctaact tgaaactgaa atccatggtg acaaaatata
     2101 aaagtagcac aatttagaga aattgtccat ttgagcacat acactacttg ccacgtgctg
     2161 tctgtttcta ggttcgaaag ccagggtgga aatgggggta gagaatgagg gaggacacaa
     2221 gagaagagtg tattctggaa gaggagttgt tctgggagga atttgcccac attagaagca
     2281 tttttctaat tccaagaagt ggtgacgtgg acgtaaaatt ttgacgagca tgaaacagta
     2341 actggacccc aaccattcta tttatagtac ttttcatatc atccatgttg aaagcaaaaa
     2401 acaacacacc ctcaaactca cagaaagtaa atagaccctg aacccaccga caatgatggg
     2461 aaggaaaaaa caaaaaacaa aaaacatttt agagaactcc cataaggacc atgaccgtgg
     2521 aaatgggagg gatgggcttt tacggagagg gtccggagag tatcaaataa ctttttaaaa
     2581 agaggattaa aatgtaagcc cactacaaaa cagataaaaa cggcaaatta ggtgtttttt
     2641 ttttttcaaa aatcttgaag acttgttgac attaacaaca acaaatccac agttggaaaa
     2701 gtccacagga gatcagatga ggatccagaa gcctctgatt tctgggtttt gcctccaaga
     2761 cctgaaacag ccacagaaac aagtcctcta taaactgtat gtccctgaca tccctttccc
     2821 ttcagcgcgt tgccgccgcc gctgccaaac ttcaactgct ttggactgaa aatgtcataa
     2881 gcgtgggtgg tgccttcaat gtgttactgt tgtttaatga cagtcttgtt tcccaagtgc
     2941 aacctgtgtt cttttagcct tccttcctct tctttttctg cagtagtaga agatgtttcc
     3001 atccttcctt tgtaggtgag cccaccccat aacaccctct gaggggctgc tacaatgtca
     3061 ggggtaccca agaacgaaga cctccctact ctctacacta tcaaaattag tccttccatt
     3121 ttctagccct ctcaaacctg tcagatgttt cttggtcccg taattcccat ggtccctcca
     3181 aattacctcc ccacatactt catgtgttca tctcccatcc agaatgtcct gaggttgttt
     3241 ttctggttgg ttctcataat ccatagtcct tggggtccca gcaaagtcag ttttcctaca
     3301 agttgtgttt gttttgtgga agcccaaaga agtggattga gagagaagag atttttatct
     3361 aaggtggaag gtttttcaac tagcccctaa aggtctttgg tagttaatta acattcaaca
     3421 gacccacagc aactctggtg tcagaagcta taaatggtct ggccaaacaa gactcagagt
     3481 attttctgaa atcctgagct gcaaggttct gcctcacctg tctctccact ctgacatcac
     3541 gaaatcagca aaaccagata tttattctcc tcactcccag cagatacgag gacaccaaca
     3601 atgcagttga tccctctggg cctgagtctc ccatctgaaa catggggaat tggggtaggt
     3661 caagcttttt gaaactgcaa aacctctacc tgtttttaaa aatgagatct tttgaccagg
     3721 cacagtggct cacacctaaa atcccagcac tttgggaggc tgaagcaggt ggatcatctg
     3781 aggtcaggag tttgagatca gcctggtcaa catggtgaaa ccccgtctct actaaaaata
     3841 caaacattag ctgggcatgg tggtgggtgc ctgtaatccc aactactcga gaggctgagg
     3901 caggagaatc gcttaaactt gggaggttgc agtgagctga gaccacacca ctgccctcta
     3961 gcctgggtga cggagtgaga ctatctcaaa aaaaaaaaaa aaaagaaaaa aaaagagatc
     4021 tttcaaagaa cgcataatag gagatctcca tgtataaaaa ggtaccatgc tgtacaaagc
     4081 tggggtcaga gatttagtgc ccaccttctc agcctccttg ggaagacccc agagcttccc
     4141 agagtcaagt aaataccact gggcatggtc agagtttcct tgacgttaat gagctatgta
     4201 cctgcaacac actttggcat ctctgtatat caccttcaca atatttgtat ctaaattgat
     4261 tcattttaat gcattttgtt tttaaaatga aaacttcctg tcttcatcac aaatttaaaa
     4321 aaaatcatca gttgccataa atagaaagca aacataaaaa taagtacaaa ggaaacaagc
     4381 agcgatgatt aaattccagc tggagtctgt tgtctgtgag tctgaactaa agcctggggt
     4441 tctttctttc tctctccatc tctctgtttc tgtttctctc tctctcttaa aatgatatca
     4501 tcaggtatta aataattgtt aaaaatacca gcacccaatg aagactttct ctttgtacta
     4561 ataagatgga ccaaaaagta aatgaaaggg gaatcatttc ctatgcaagt cagtgttgaa
     4621 caatgctgta gctatgtact gcctatgatc attgtgcata cactaggggt gcatagccca
     4681 cacttcagaa aaccctgggt tgacttatct gtgaggctct ttccagctca aagtttccat
     4741 aattcttatc tcccttttac ctcgtggttg ctctttgccc ccagtccact tcgtcccacc
     4801 cttatctcaa ctctgattaa gagtctttct tggcctctaa atctgtagta ttgtattcct
     4861 tctgcatgct ccttctcctc tgaataaact tcatcaattg aactgggctc cttggggtct
     4921 gcagttgtaa ttttggcagc aaaggtgcag actggtcatt aagatgtagc cacaatgatg
     4981 gcccaagaag gacacgtact ttccaagtag tcctgtctag gatggaaagc tcaggaagtg
     5041 cttcatagtt tattatcttc cagttggttt tgggagatga actgaagagg gaagtttgga
     5101 tagggaaggt ctttttattc tttttttttt aatgtatcca tggagtattt attattatta
     5161 ttattattat tattattatt attatacttt aagttttagg gtacatgtgc acaatgtgca
     5221 ggttagttac atatgtatac acgtgtcatg ctggtgtgct gcacccatta actcgtcatt
     5281 tagcattagc tatatctcct aatgctatcc ctcccccctc cccccacccc acaacagtcc
     5341 ccagagtgtg atgttcccct tcttgtgtcc atgtgttctc attgttcaat tcccatctat
     5401 gagtgagaac atgcagtgtt tggttttttt gtccttgcga tagtttactg agaatgatga
     5461 tttccaattt catccatgtc cctacaaagg acatgaactc atcatttttt atggctgcat
     5521 agtattccat ggtgtatatg tgccacattt tcttaatcca gtctatcctt gttggacttt
     5581 tgggttggtt ccaagtcttt gctattgtga atagtgccgc aataaacata cgtgtgcatg
     5641 tgtctttata gcagcatgat ttatagtcct ttgggtatat acccagtaat gggatggctg
     5701 ggtcaaatgg tatttctagt tctagatccc tgaggaatcg ccacactgac ttccacaatg
     5761 gttgaactag tttacagtcc caccagcagt gtaaaagtgt tcctatttct ccacatcctc
     5821 tccagcacct gttgtttcct gactttttaa tgattgccat tctaactggc gtgagatggt
     5881 atctcattgt ggttttgatt tgcatttctc tgatggccag tgatgatgag cattttttca
     5941 tgtgtctttt gactgcataa atgtcttttg agaagtgtct gttcatatcc ttcgcccact
     6001 ttttgatggg gttgtttgtt tttttcttgt aaatttgttt gagttcattg tagattctgg
     6061 atattagccc tttgtcagat gagtaggttg cgaaaatttt ctcccatttt gtaggttgcc
     6121 tgttcactct gatggtagtt tcttttgctg tgcagaagct ctttagttta attagatccc
     6181 atttgtcaat tttggcttcc tcttgggagg gtagacagac ctcacaatat ggaaagacgg
     6241 gacaacctat ggaactatct gtgacttcca tgtaccaaga caaggacgct atagctaggg
     6301 tagtgagacc tagaagagag aaaccagaac aaagcagaca ggctgtcctc ttcctaattc
     6361 catgccctga catcagcccc tattttttgc ctttagctgt cccccagttt ccaacccaat
     6421 gggaccagag tctgacttcc ctttgccctt tcacagtgtc tcagcctcca tctgccttgg
     6481 gctccgcctg gcctccccat ctaactcttc ccagtttttt gtgtaaatgg agcatatttt
     6541 atgtgcgaat attttagtaa ccgtatgttc tgcaagtaaa cctgtgttaa tacttgtcaa
     6601 caactgcaga gtttatgata cgaataattc ttcctacaat gaagaaaaaa acacatttgt
     6661 ttgttttcta agaatgttta tttgtaaaca tatgtattca ctatattaat atgaatttct
     6721 tacctggcaa taaaactgat tatatgtga
//
