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2024-03-29 08:31:12, GGRNA : RefSeq release 60 (20130726)

LOCUS       NM_001040199            2500 bp    mRNA    linear   PRI 17-APR-2013
DEFINITION  Homo sapiens claudin domain containing 1 (CLDND1), transcript
            variant 6, mRNA.
ACCESSION   NM_001040199
VERSION     NM_001040199.1  GI:93588649
KEYWORDS    RefSeq.
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 2500)
  AUTHORS   Liu,Y., Sun,W., Zhang,K., Zheng,H., Ma,Y., Lin,D., Zhang,X.,
            Feng,L., Lei,W., Zhang,Z., Guo,S., Han,N., Tong,W., Feng,X., Gao,Y.
            and Cheng,S.
  TITLE     Identification of genes differentially expressed in human primary
            lung squamous cell carcinoma
  JOURNAL   Lung Cancer 56 (3), 307-317 (2007)
   PUBMED   17316888
  REMARK    GeneRIF: A cDNA library consisting of 220 upregulated genes in
            tumour tissue was established and named as LSCC. Differential
            expression was confirmed in five of these genes, including IGFBP5,
            SQLE, RAP2B, CLDN1, and TBL1XR1.
REFERENCE   2  (bases 1 to 2500)
  AUTHORS   Lamesch,P., Li,N., Milstein,S., Fan,C., Hao,T., Szabo,G., Hu,Z.,
            Venkatesan,K., Bethel,G., Martin,P., Rogers,J., Lawlor,S.,
            McLaren,S., Dricot,A., Borick,H., Cusick,M.E., Vandenhaute,J.,
            Dunham,I., Hill,D.E. and Vidal,M.
  TITLE     hORFeome v3.1: a resource of human open reading frames representing
            over 10,000 human genes
  JOURNAL   Genomics 89 (3), 307-315 (2007)
   PUBMED   17207965
REFERENCE   3  (bases 1 to 2500)
  AUTHORS   Fayein,N.A., Stankoff,B., Auffray,C. and Devignes,M.D.
  TITLE     Characterization of tissue expression and full-length coding
            sequence of a novel human gene mapping at 3q12.1 and transcribed in
            oligodendrocytes
  JOURNAL   Gene 289 (1-2), 119-129 (2002)
   PUBMED   12036590
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            DB461184.1, AC021660.16, BF967477.1, BI552824.1, BC013610.1,
            EB386420.1 and AA811441.1.
            
            Transcript Variant: This variant (6) differs in the 5' UTR compared
            to variant 1. Variants 1, 2, 3, and 6 encode the same isoform (a).
            
            ##Evidence-Data-START##
            Transcript exon combination :: BI551055.1, BI667707.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           ERS025082, ERS025083 [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-11                DB461184.1         1-11
            12-243              AC021660.16        119164-119395
            244-460             BF967477.1         14-230
            461-852             BI552824.1         4-395
            853-1896            BC013610.1         391-1434
            1897-2345           EB386420.1         279-727
            2346-2500           AA811441.1         1-155               c
FEATURES             Location/Qualifiers
     source          1..2500
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3q12.1"
     gene            1..2500
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /note="claudin domain containing 1"
                     /db_xref="GeneID:56650"
                     /db_xref="HGNC:1322"
     exon            1..525
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /inference="alignment:Splign:1.39.8"
     misc_feature    361..363
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /note="upstream in-frame stop codon"
     exon            526..835
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /inference="alignment:Splign:1.39.8"
     variation       529..530
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="a"
                     /replace="c"
                     /db_xref="dbSNP:11553645"
     variation       540
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="c"
                     /replace="g"
                     /db_xref="dbSNP:11553648"
     CDS             544..1305
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /note="isoform a is encoded by transcript variant 6;
                     claudin domain containing 1 protein; claudin
                     domain-containing protein 1; membrane protein GENX-3745"
                     /codon_start=1
                     /product="claudin domain-containing protein 1 isoform a"
                     /protein_id="NP_001035289.1"
                     /db_xref="GI:93588650"
                     /db_xref="CCDS:CCDS2930.1"
                     /db_xref="GeneID:56650"
                     /db_xref="HGNC:1322"
                     /translation="
MDNRFATAFVIACVLSLISTIYMAASIGTDFWYEYRSPVQENSSDLNKSIWDEFISDEADEKTYNDALFRYNGTVGLWRRCITIPKNMHWYSPPERTESFDVVTKCVSFTLTEQFMEKFVDPGNHNSGIDLLRTYLWRCQFLLPFVSLGLMCFGALIGLCACICRSLYPTIATGILHLLAGLCTLGSVSCYVAGIELLHQKLELPDNVSGEFGWSFCLACVSAPLQFMASALFIWAAHTNRKEYTLMKAYRVA
"
     misc_feature    556..618
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /inference="non-experimental evidence, no additional
                     details recorded"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9NY35.1);
                     transmembrane region"
     misc_feature    592..1245
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /note="PMP-22/EMP/MP20/Claudin tight junction; Region:
                     Claudin_2; pfam13903"
                     /db_xref="CDD:206074"
     misc_feature    964..1026
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /inference="non-experimental evidence, no additional
                     details recorded"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9NY35.1);
                     transmembrane region"
     misc_feature    1066..1128
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /inference="non-experimental evidence, no additional
                     details recorded"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9NY35.1);
                     transmembrane region"
     misc_feature    1189..1251
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /inference="non-experimental evidence, no additional
                     details recorded"
                     /note="propagated from UniProtKB/Swiss-Prot (Q9NY35.1);
                     transmembrane region"
     variation       554
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="a"
                     /replace="g"
                     /db_xref="dbSNP:11553643"
     variation       604
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="a"
                     /replace="t"
                     /db_xref="dbSNP:11553647"
     variation       620
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="c"
                     /replace="g"
                     /db_xref="dbSNP:11553642"
     variation       644
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="a"
                     /replace="g"
                     /db_xref="dbSNP:11553639"
     variation       722
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="a"
                     /replace="g"
                     /db_xref="dbSNP:11553646"
     variation       789
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="a"
                     /replace="c"
                     /db_xref="dbSNP:11553650"
     exon            836..946
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /inference="alignment:Splign:1.39.8"
     exon            947..1084
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /inference="alignment:Splign:1.39.8"
     variation       1038
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="a"
                     /replace="t"
                     /db_xref="dbSNP:11553641"
     variation       1041
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="c"
                     /replace="t"
                     /db_xref="dbSNP:35994971"
     exon            1085..2491
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /inference="alignment:Splign:1.39.8"
     variation       1227
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="g"
                     /replace="t"
                     /db_xref="dbSNP:11553649"
     STS             1287..1377
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /standard_name="D3S2932E"
                     /db_xref="UniSTS:150916"
     variation       2210
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /replace="a"
                     /replace="g"
                     /db_xref="dbSNP:11553644"
     STS             2254..2456
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
                     /standard_name="D3S3109"
                     /db_xref="UniSTS:80916"
     polyA_signal    2458..2463
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
     polyA_signal    2464..2469
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
     polyA_site      2481
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
     polyA_site      2491
                     /gene="CLDND1"
                     /gene_synonym="C3orf4; GENX-3745"
ORIGIN      
tatcgccgcctcagacagctttcagtctgtccctcctacaactcccacaaggcccctcggccccgggccgcggcccggcccggagtgggggcgggcggaggcgcgggagttatggagggggcgggctctgcagggaagtgcgtcagaggaggcgcggggagagtagggtgctgtggtctgagctagagggtgaagctggcggagcaggaggatgggcggtgagtgagcgggacctgcgtcgccgggcaggggtcgcgtcgcggttccatgttcccggcggtttgaagaggggcccccttcccgggcgtggtcgggctgggcgggttccgagcggcggatttgtcccagggccgagccctctagggcggggcctggtcgggtaccgggggaccctggcccggggccgagcacggctgccccgccccagccctggccttctccggccccgccgtgaggcccaggaggtggctgctgcaggcgtccggcttggacgaaccgccgttcccagtgctgggaccctttaagagcagtctgaatgccagaatggataaccgttttgctacagcatttgtaattgcttgtgtgcttagcctcatttccaccatctacatggcagcctccattggcacagacttctggtatgaatatcgaagtccagttcaagaaaattccagtgatttgaataaaagcatctgggatgaattcattagtgatgaggcagatgaaaagacttataatgatgcactttttcgatacaatggcacagtgggattgtggagacggtgtatcaccatacccaaaaacatgcattggtatagcccaccagaaaggacagagtcatttgatgtggtcacaaaatgtgtgagtttcacactaactgagcagttcatggagaaatttgttgatcccggaaaccacaatagcgggattgatctccttaggacctatctttggcgttgccagttccttttaccttttgtgagtttaggtttgatgtgctttggggctttgatcggactttgtgcttgcatttgccgaagcttatatcccaccattgccacgggcattctccatctccttgcaggtctgtgtacactgggctcagtaagttgttatgttgctggaattgaactactccaccagaaactagagctccctgacaatgtatccggtgaatttggatggtccttctgcctggcttgtgtctctgctcccttacagttcatggcttctgctctcttcatctgggctgctcacaccaaccggaaagagtacaccttaatgaaggcatatcgtgtggcatgagcaagaaactgcctgctttacaattgccatttttatttttttaaaataatactgatattttccccacctctcaattgtttttaatttttatttgtggatataccattttattatgaaaatctattttatttatacacattcaccactaaatacacacttaataccactaaaatttatgtggtttactttaagcgatgccatctttcaaataaactaatctaggtctagacagaaagaaatggatagagacttgacacaaatttatgaaagaaaattgggagtaggaatgtgaccgaaaacaagttgtgctaatgtctgttagacttttcagtaaaactaaagtaactgtatctgttcaactaaaaactctatattagtttctttgggaaacctctcatcgtcaaaactttatgttcactttgctgttgtagatagccagtcaaccagcagtattagtgctgttttcaaagatttaagctctataaaattgggaaattatctaagatcattttccctaagcattgacacatagcttcatctgaggtgagatatggcagctgtttgtatctgcactgtgtctgtctacaaaaagtgaaaaatacagtgtttacttgaaattttaactttgtaactgcaagaattccagttcagccgggcgaggattagtattatttttaactctccgtaagattttcagtaccaccaaattgttttggattttttttctttcctcttcacataccagggttattaaaagtgtgctttctttttacattatattacagttacaaggtaaaattcctcaactgctatttatttattccagcccagtactataaagaacgtttcaccataatgaccctccagagctgggaaacctaccacaagatctaaagttctggctgtccattaacctccaactatggtctttatttcttgtggtaatatgatgtgcctttccttgcctaaatcccttcctggtgtgtatcaacattatttaatgtcttctaattcagtcatttttttataagtatgtctataaacattgaactttaaaaaacttatttatttattccactactgtagcaattgacagattaaaaaaatgtaacttcataatttcttaccataacctcaatgtcttttttaaaaaataaaattaaaaatgaaaagagactcaattgtaaaaaaaaaa
//

Annotations:

ANNOTATIONS from NCBI Entrez Gene (20130726):
            GeneID:56650 -> Cellular component: GO:0016021 [integral to membrane] evidence: IEA

by @meso_cacase at DBCLS
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