LOCUS       NM_024901               3239 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens DENN domain containing 2D (DENND2D), transcript
            variant 1, mRNA.
ACCESSION   NM_024901
VERSION     NM_024901.5
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 3239)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   2  (bases 1 to 3239)
  AUTHORS   Ioannou,M.S., Kulasekaran,G., Fotouhi,M., Morein,J.J., Han,C.,
            Tse,S., Nossova,N., Han,T., Mannard,E. and McPherson,P.S.
  TITLE     Intersectin-s interaction with DENND2B facilitates recycling of
            epidermal growth factor receptor
  JOURNAL   EMBO Rep 18 (12), 2119-2130 (2017)
   PUBMED   29030480
REFERENCE   3  (bases 1 to 3239)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Paulo,J.A., Cannon,J.R., Ting,L.,
            Baltier,K., Colby,G., Gebreab,F., Gygi,M.P., Parzen,H., Szpyt,J.,
            Tam,S., Zarraga,G., Pontano-Vaites,L., Swarup,S., White,A.E.,
            Schweppe,D.K., Rad,R., Erickson,B.K., Obar,R.A., Guruharsha,K.G.,
            Li,K., Artavanis-Tsakonas,S., Gygi,S.P. and Harper,J.W.
  TITLE     Architecture of the human interactome defines protein communities
            and disease networks
  JOURNAL   Nature 545 (7655), 505-509 (2017)
   PUBMED   28514442
REFERENCE   4  (bases 1 to 3239)
  AUTHORS   Sakha,S., Muramatsu,T., Ueda,K. and Inazawa,J.
  TITLE     Exosomal microRNA miR-1246 induces cell motility and invasion
            through the regulation of DENND2D in oral squamous cell carcinoma
  JOURNAL   Sci Rep 6, 38750 (2016)
   PUBMED   27929118
  REMARK    GeneRIF: resulted in increased cell motility and invasive ability.
            Moreover, miR-1246 increased cell motility by directly targeting
            DENN/MADD Domain Containing 2D (DENND2D)
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3239)
  AUTHORS   Kanda,M., Shimizu,D., Nomoto,S., Takami,H., Hibino,S., Oya,H.,
            Hashimoto,R., Suenaga,M., Inokawa,Y., Kobayashi,D., Tanaka,C.,
            Yamada,S., Fujii,T., Nakayama,G., Sugimoto,H., Koike,M.,
            Fujiwara,M. and Kodera,Y.
  TITLE     Prognostic impact of expression and methylation status of DENN/MADD
            domain-containing protein 2D in gastric cancer
  JOURNAL   Gastric Cancer 18 (2), 288-296 (2015)
   PUBMED   24695972
  REMARK    GeneRIF: Higher frequency of promoter hypermethylation of DENND2D
            is associated with gastric cancer.
REFERENCE   6  (bases 1 to 3239)
  AUTHORS   Hibino,S., Kanda,M., Oya,H., Takami,H., Shimizu,D., Nomoto,S.,
            Hishida,M., Niwa,Y., Koike,M., Yamada,S., Nishikawa,Y., Asai,M.,
            Nakayama,G., Fujii,T., Sugimoto,H., Fujiwara,M. and Kodera,Y.
  TITLE     Reduced expression of DENND2D through promoter hypermethylation is
            an adverse prognostic factor in squamous cell carcinoma of the
            esophagus
  JOURNAL   Oncol Rep 31 (2), 693-700 (2014)
   PUBMED   24317529
  REMARK    GeneRIF: DENND2D is a candidate tumor suppressor gene that was
            inactivated by promoter hypermethylation in patients with
            esophageal squamous cell carcinoma and may serve as a novel
            biomarker of esophageal squamous cell carcinoma.
REFERENCE   7  (bases 1 to 3239)
  AUTHORS   Kanda,M., Nomoto,S., Oya,H., Takami,H., Hibino,S., Hishida,M.,
            Suenaga,M., Yamada,S., Inokawa,Y., Nishikawa,Y., Asai,M., Fujii,T.,
            Sugimoto,H. and Kodera,Y.
  TITLE     Downregulation of DENND2D by promoter hypermethylation is
            associated with early recurrence of hepatocellular carcinoma
  JOURNAL   Int J Oncol 44 (1), 44-52 (2014)
   PUBMED   24189587
  REMARK    GeneRIF: DENND2D is a candidate tumor suppressor gene that is
            inactivated by promoter hypermethylation in patients with
            Hepatocellular carcinoma and may serve as a novel biomarker of
            early recurrence of Hepatocellular carcinoma .
REFERENCE   8  (bases 1 to 3239)
  AUTHORS   Ling,B., Zheng,H., Fu,G., Yuan,J., Shi,T., Chen,S., Liu,Y., Liu,Y.,
            Cao,Y., Zheng,S., Guo,S., Han,N., Gao,Y., Cheng,S. and Zhang,K.
  TITLE     Suppression of non-small cell lung cancer proliferation and
            tumorigenicity by DENND2D
  JOURNAL   Lung Cancer 79 (2), 104-110 (2013)
   PUBMED   23182661
  REMARK    GeneRIF: Our data show that DENND2D might function as a tumor
            suppressor-like gene, preventing survival and expansion of cells
            with genetic damage through apoptosis mechanism. Absence of DENND2D
            might play a permissive role, as an early event, in tumorigenesis.
REFERENCE   9  (bases 1 to 3239)
  AUTHORS   Yoshimura,S., Gerondopoulos,A., Linford,A., Rigden,D.J. and
            Barr,F.A.
  TITLE     Family-wide characterization of the DENN domain Rab GDP-GTP
            exchange factors
  JOURNAL   J Cell Biol 191 (2), 367-381 (2010)
   PUBMED   20937701
REFERENCE   10 (bases 1 to 3239)
  AUTHORS   Bloethner,S., Mould,A., Stark,M. and Hayward,N.K.
  TITLE     Identification of ARHGEF17, DENND2D, FGFR3, and RB1 mutations in
            melanoma by inhibition of nonsense-mediated mRNA decay
  JOURNAL   Genes Chromosomes Cancer 47 (12), 1076-1085 (2008)
   PUBMED   18677770
  REMARK    GeneRIF: Mutations in DENND2D in melanoma by inhibition of
            nonsense-mediated mRNA decay.
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BC004557.2 and AL355816.14.
            
            On Nov 22, 2018 this sequence version replaced NM_024901.4.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (a).
            
            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##
            Transcript exon combination :: BC004557.2, SRR1163655.135089.1
                                           [ECO:0000332]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000357640.9/ ENSP00000350266.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2029              BC004557.2         14-2042
            2030-3239           AL355816.14        106006-107215       c
FEATURES             Location/Qualifiers
     source          1..3239
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p13.3-p13.2"
     gene            1..3239
                     /gene="DENND2D"
                     /note="DENN domain containing 2D"
                     /db_xref="GeneID:79961"
                     /db_xref="HGNC:HGNC:26192"
                     /db_xref="MIM:615111"
     exon            1..254
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     CDS             188..1603
                     /gene="DENND2D"
                     /note="isoform a is encoded by transcript variant 1; DENN
                     domain-containing protein 2D; RP5-1180E21.2; DENN/MADD
                     domain containing 2D"
                     /codon_start=1
                     /product="DENN domain-containing protein 2D isoform a"
                     /protein_id="NP_079177.2"
                     /db_xref="CCDS:CCDS831.1"
                     /db_xref="GeneID:79961"
                     /db_xref="HGNC:HGNC:26192"
                     /db_xref="MIM:615111"
                     /translation="MEGQVVGRVFRLFQRRLLQLRAGPPQDNSGEALKEPERAQEHSL
                     PNFAGGQHFFEYLLVVSLKKKRSEDDYEPIITYQFPKRENLLRGQQEEEERLLKAIPL
                     FCFPDGNEWASLTEYPRETFSFVLTNVDGSRKIGYCRRLLPAGPGPRLPKVYCIISCI
                     GCFGLFSKILDEVEKRHQISMAVIYPFMQGLREAAFPAPGKTVTLKSFIPDSGTEFIS
                     LTRPLDSHLEHVDFSSLLHCLSFEQILQIFASAVLERKIIFLAEGLSTLSQCIHAAAA
                     LLYPFSWAHTYIPVVPESLLATVCCPTPFMVGVQMRFQQEVMDSPMEEVLLVNLCEGT
                     FLMSVGDEKDILPPKLQDDILDSLGQGINELKTAEQINEHVSGPFVQFFVKIVGHYAS
                     YIKREANGQGHFQERSFCKALTSKTNRRFVKKFVKTQLFSLFIQEAEKSKNPPAGYFQ
                     QKILEYEEQKKQKKPREKTVK"
     exon            255..430
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     exon            431..543
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     exon            544..613
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     exon            614..691
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     exon            692..832
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     exon            833..981
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     exon            982..1159
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     exon            1160..1201
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     exon            1202..1286
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     exon            1287..1526
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     exon            1527..3239
                     /gene="DENND2D"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2010..2015
                     /regulatory_class="polyA_signal_sequence"
                     /gene="DENND2D"
                     /note="hexamer: AGTAAA"
     polyA_site      2034
                     /gene="DENND2D"
                     /note="major polyA site"
     regulatory      3213..3218
                     /regulatory_class="polyA_signal_sequence"
                     /gene="DENND2D"
                     /note="hexamer: AATAAA"
     polyA_site      3239
                     /gene="DENND2D"
ORIGIN      
        1 acatccttct tgctcaacca ctgggtgcac aggatggaaa cttctattcc ctctctggaa
       61 gacagcgcgt ggcttggctt cacagagttg tggctggaga ccgaagcagc ccctttctca
      121 ggcttactgt caccagtctg tctgtgttag gggagagggg agtccgctct gtcctgaagg
      181 cccagagatg gaaggacaag tggtaggccg ggtgttcagg ctcttccaac gccgactgct
      241 tcaactccga gcaggaccac cccaggacaa ttcaggggaa gctttaaagg aaccagaaag
      301 ggcccaggag cactctttgc ccaactttgc tggggggcag cacttctttg aataccttct
      361 tgtggtttct ctcaaaaaga agcgttcaga ggatgattac gagcctataa tcacctacca
      421 atttcccaag cgggagaacc tgcttcgggg tcagcaggag gaggaggagc ggctgctcaa
      481 agctatcccc ttgttctgct tcccagatgg gaatgagtgg gcatcactca ccgagtatcc
      541 cagggagacc ttctccttcg ttctgaccaa tgtggatggg agcagaaaga ttggatactg
      601 caggcgcctc ttgcctgccg gccctggccc tcgccttccc aaagtgtact gcatcatcag
      661 ctgcatcggc tgcttcggct tgttctccaa gatcctggat gaagtggaga agagacatca
      721 gatctccatg gctgtcatct acccgttcat gcagggcctc cgagaggcag ccttccctgc
      781 tcctgggaag actgtcactc tcaagagctt catccccgac tcaggcactg agttcatttc
      841 actgacacgg cccctggact cccacctaga acatgtggat tttagttctc tattgcactg
      901 tctcagtttt gaacagatac ttcagatctt tgcctctgcc gtgctggaga gaaaaatcat
      961 cttcctggcg gaaggtctca gcaccttgtc tcagtgcatc catgctgctg ccgcactgct
     1021 ctaccccttc agctgggcgc acacctacat ccctgttgtc cctgagagcc ttctggccac
     1081 cgtctgctgc cccaccccct tcatggttgg agtacaaatg cgcttccagc aggaggtcat
     1141 ggacagccct atggaagagg tcctgctggt caatctttgt gaaggaacct tcttaatgtc
     1201 ggttggtgat gaaaaagaca tcctgccacc gaagcttcag gatgacatct tagactctct
     1261 tggtcagggg atcaatgagt taaagactgc agaacaaatc aacgagcatg tttcaggccc
     1321 ctttgtgcag ttctttgtca agattgtggg ccattatgct tcctatatca agcgggaggc
     1381 aaatgggcaa ggccacttcc aagaaagatc cttctgtaag gctctgacct ccaagaccaa
     1441 ccgccgattt gtgaagaagt ttgtgaagac acagctcttc tcacttttca tccaggaagc
     1501 cgagaagagc aagaatcctc ctgcaggcta tttccaacag aaaatacttg aatatgagga
     1561 acagaagaaa cagaagaaac caagggaaaa aactgtgaaa taagagctgt ggtgaataag
     1621 aatgactaga gctacacacc atttctggac ttcagcccct gccagtgtgg caggatcagc
     1681 aaaactgtca gctcccaaaa tccatatcct cactctgagt cttggtatcc aggtattgct
     1741 tcaaactggt gtctgagatt tggatccctg gtattgattt ctcaggactt tggagggctc
     1801 tgacaccatg ctcacagaac tgggctcaga gctccatttt ttgcagaggt gacacaggta
     1861 ggaaacagta gtacatgtgt tgtagacact tggttagaag ctgctgcaac tgccctctcc
     1921 catcattata acatcttcaa cacagaacac actttgtggt cgaaaggctc agcctctcta
     1981 catgaagtct gtggacatgt aaggacgaga gtaaagagga aaatcttatt tttatatgtg
     2041 tctttggctt ttactatggg taaaagtatt ttcctcgtgg aaaataaggc aatgaatatg
     2101 acaatcaagt ggactacaag tggaagacct ggccatgggg atatgtttgg agtgatagaa
     2161 tcatgggggg cagcagctct acttcttcta accggaaggg taagagatac tggtaaaagc
     2221 agcagcagca ctggacacag ggcatctaag tccttggttt ggagtcaggt gtgctttcca
     2281 gaatcctggg aggagaggct gctcactgaa gggaagcagc ttcagtctag agtaatttga
     2341 ggataggaat ttcagtcaac agcagcctgt gaagaacact acatggcttc catacgtagg
     2401 tctgtttccc catcactttc agtttgcact agtcctttac cttcagtctt ggacatccta
     2461 cctccaactg atctttattt tgagcagcac agtccaattc tttaactaaa ggtgaaggga
     2521 tcgctgcact gacgttcttc ccctttgaga aaagaatcgt aattttaaga gtctgaagga
     2581 gtttagtggt cacctagtct ctcctccctt gatacctcta ctgatacttt ctactcaagc
     2641 attgggaagc ttttttagaa gaatcttatc ttcaaaaatt ctaccttttt taatgtgtgt
     2701 atttgtggcc ctcagaagtt cctaaattct atacaaagaa cacaaaagtt tctggagggt
     2761 ggaaccgggc atactgaagt tcaagccaat gtaatttgct tttgggagtg cagagaccta
     2821 ctgcaggtgg cagatgtccc actgtccaca caccgtgctt agctacacta ctattcttca
     2881 cagcttctag gaattacatt tttttttggt agtttatggc agtggtgcct aaatatagtt
     2941 gtacctccaa aggtttcaga acaggaactg gaatcctgag aatcttgtga aaatatcctc
     3001 ttatgcctca tcacaaatac accaaatcat ctctagtgat aggacctgga aatctgtact
     3061 ttcttaaaag gttcttcagg taaggtttgc tgaggtttat tacaaatgta cccttgattt
     3121 gatgctaatg ctgtatttag ggctgaagga agcacacact aaatatctga gtgcttttca
     3181 gattccatct atgctgaaaa agaatctagg agaataaaca catttcaatt agcccttaa
//
