LOCUS       NM_002598               3355 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens programmed cell death 2 (PDCD2), transcript variant 1,
            mRNA.
ACCESSION   NM_002598
VERSION     NM_002598.4
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 3355)
  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 3355)
  AUTHORS   Landry-Voyer,A.M., Bergeron,D., Yague-Sanz,C., Baker,B. and
            Bachand,F.
  TITLE     PDCD2 functions as an evolutionarily conserved chaperone dedicated
            for the 40S ribosomal protein uS5 (RPS2)
  JOURNAL   Nucleic Acids Res 48 (22), 12900-12916 (2020)
   PUBMED   33245768
  REMARK    GeneRIF: PDCD2 functions as an evolutionarily conserved chaperone
            dedicated for the 40S ribosomal protein uS5 (RPS2).
REFERENCE   3  (bases 1 to 3355)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   4  (bases 1 to 3355)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   5  (bases 1 to 3355)
  AUTHORS   Liu,H., Wang,M., Liang,N. and Guan,L.
  TITLE     PDCD2 sensitizes HepG2 cells to sorafenib by suppressing
            epithelial-mesenchymal transition
  JOURNAL   Mol Med Rep 19 (3), 2173-2179 (2019)
   PUBMED   30664177
  REMARK    GeneRIF: the present study elucidated for the first time, to the
            best of our knowledge, that PDCD2 sensitizes sorafenibresistant
            HepG2 cells to sorafenib by the downregulation of EMT. PDCD2 may
            serve as a potential therapeutic target in the treatment of
            sorafenibresistant liver cancer.
REFERENCE   6  (bases 1 to 3355)
  AUTHORS   Chen,Q., Qian,K. and Yan,C.
  TITLE     Cloning of cDNAs with PDCD2(C) domain and their expressions during
            apoptosis of HEK293T cells
  JOURNAL   Mol Cell Biochem 280 (1-2), 185-191 (2005)
   PUBMED   16311922
  REMARK    GeneRIF: To study the role of PDCD2_C domain in apoptosis, the
            cDNAs of two isoforms of PDCD2 and MGC13096 were cloned. PDCD2
            (NM_002598) was over expressed when endothelial cells treated with
            leukotriene D4 or natural killer cells were activated by IL-2.
REFERENCE   7  (bases 1 to 3355)
  AUTHORS   Chistiakov,D.A., Seryogin,Y.A., Turakulov,R.I., Savost'anov,K.V.,
            Titovich,E.V., Zilberman,L.I., Kuraeva,T.L., Dedov,I.I. and
            Nosikov,V.V.
  TITLE     Evaluation of IDDM8 susceptibility locus in a Russian simplex
            family data set
  JOURNAL   J Autoimmun 24 (3), 243-250 (2005)
   PUBMED   15848047
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   8  (bases 1 to 3355)
  AUTHORS   Scarr,R.B. and Sharp,P.A.
  TITLE     PDCD2 is a negative regulator of HCF-1 (C1)
  JOURNAL   Oncogene 21 (34), 5245-5254 (2002)
   PUBMED   12149646
REFERENCE   9  (bases 1 to 3355)
  AUTHORS   Baron,B.W., Anastasi,J., Thirman,M.J., Furukawa,Y., Fears,S.,
            Kim,D.C., Simone,F., Birkenbach,M., Montag,A., Sadhu,A.,
            Zeleznik-Le,N. and McKeithan,T.W.
  TITLE     The human programmed cell death-2 (PDCD2) gene is a target of BCL6
            repression: implications for a role of BCL6 in the down-regulation
            of apoptosis
  JOURNAL   Proc Natl Acad Sci U S A 99 (5), 2860-2865 (2002)
   PUBMED   11854457
REFERENCE   10 (bases 1 to 3355)
  AUTHORS   Kawakami,T., Furukawa,Y., Sudo,K., Saito,H., Takami,S.,
            Takahashi,E. and Nakamura,Y.
  TITLE     Isolation and mapping of a human gene (PDCD2) that is highly
            homologous to Rp8, a rat gene associated with programmed cell death
  JOURNAL   Cytogenet Cell Genet 71 (1), 41-43 (1995)
   PUBMED   7606924
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BC008378.1, AK055180.1 and
            AL031259.1.
            
            On May 17, 2019 this sequence version replaced NM_002598.3.
            
            Summary: This gene encodes a nuclear protein expressed in a variety
            of tissues. Expression of this gene has been shown to be repressed
            by B-cell CLL/lymphoma 6 (BCL6), a transcriptional repressor
            required for lymph node germinal center development, suggesting
            that BCL6 regulates apoptosis by its effects on this protein.
            Alternative splicing results in multiple transcript variants and
            pseudogenes have been identified on chromosomes 9 and 12. [provided
            by RefSeq, Dec 2010].
            
            Transcript Variant: This variant (1) encodes the longest isoform
            (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 :: SRR1660805.179329.1,
                                           SRR1660807.126769.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000541970.6/ ENSP00000439467.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1185              BC008378.1         18-1202
            1186-3078           AK055180.1         1118-3010
            3079-3355           AL031259.1         73371-73647
FEATURES             Location/Qualifiers
     source          1..3355
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6q27"
     gene            1..3355
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /note="programmed cell death 2"
                     /db_xref="GeneID:5134"
                     /db_xref="HGNC:HGNC:8762"
                     /db_xref="MIM:600866"
     exon            1..339
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /inference="alignment:Splign:2.1.0"
     CDS             57..1091
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /note="isoform 1 is encoded by transcript variant 1; zinc
                     finger protein Rp-8; programmed cell death protein 2; zinc
                     finger MYND domain-containing protein 7"
                     /codon_start=1
                     /product="programmed cell death protein 2 isoform 1"
                     /protein_id="NP_002589.2"
                     /db_xref="CCDS:CCDS5316.1"
                     /db_xref="GeneID:5134"
                     /db_xref="HGNC:HGNC:8762"
                     /db_xref="MIM:600866"
                     /translation="MAAAGARPVELGFAESAPAWRLRSEQFPSKVGGRPAWLGAAGLP
                     GPQALACELCGRPLSFLLQVYAPLPGRPDAFHRCIFLFCCREQPCCAGLRVFRNQLPR
                     KNDFYSYEPPSENPPPETGESVCLQLKSGAHLCRVCGCLGPKTCSRCHKAYYCSKEHQ
                     TLDWRLGHKQACAQPDHLDHIIPDHNFLFPEFEIVIETEDEIMPEVVEKEDYSEIIGS
                     MGEALEEELDSMAKHESREDKIFQKFKTQIALEPEQILRYGRGIAPIWISGENIPQEK
                     DIPDCPCGAKRILEFQVMPQLLNYLKADRLGKSIDWGILAVFTCAESCSLGTGYTEEF
                     VWKQDVTDTP"
     exon            340..582
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /inference="alignment:Splign:2.1.0"
     exon            583..714
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /inference="alignment:Splign:2.1.0"
     exon            715..818
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /inference="alignment:Splign:2.1.0"
     exon            819..932
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /inference="alignment:Splign:2.1.0"
     exon            933..3355
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1267..1272
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /note="hexamer: AATAAA"
     polyA_site      1288
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /note="major polyA site"
     regulatory      1498..1503
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /note="hexamer: AATAAA"
     polyA_site      1531
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
     regulatory      3020..3025
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /note="hexamer: AATAAA"
     regulatory      3034..3039
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /note="hexamer: CATAAA"
     polyA_site      3042
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
     regulatory      3048..3053
                     /regulatory_class="polyA_signal_sequence"
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
                     /note="hexamer: ATTAAA"
     polyA_site      3056
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
     polyA_site      3068
                     /gene="PDCD2"
                     /gene_synonym="RP8; ZMYND7"
ORIGIN      
        1 gatttccgcc ttccgaccca gctgtgggct gcgccccacg ccagcccgcg ccccgcatgg
       61 ctgccgccgg ggccaggcct gtggagctgg gcttcgccga gtcggcgccg gcgtggcgac
      121 tgcgcagcga gcagttcccc agcaaggtgg gcgggcggcc ggcatggctg ggcgcggccg
      181 ggctgccggg gccccaggcc ctggcctgcg agctgtgcgg ccgcccgctc tccttcctgc
      241 tgcaggtgta tgcgccgctg cctggccgcc cggacgcctt ccaccgctgc atcttcctct
      301 tctgctgccg cgagcagccg tgctgtgccg gcctgcgagt ttttaggaat caactaccca
      361 ggaaaaacga tttttactca tatgagccac cttctgagaa tcctccccca gaaacaggag
      421 aatcagtgtg tctccagctt aagtctggtg ctcatctctg cagggtttgt ggctgtttag
      481 gccccaaaac gtgctccaga tgccacaaag catattactg cagcaaggag catcagaccc
      541 tagactggag attgggacat aagcaggctt gtgcacaacc agatcatctg gaccatataa
      601 ttccagacca caacttcctt tttccagaat ttgaaattgt aatagaaaca gaagatgaga
      661 ttatgcctga ggttgtggaa aaggaagatt actcagagat tatagggagc atgggtgaag
      721 cacttgagga agaactggat tccatggcaa aacatgaatc cagggaagat aaaatttttc
      781 agaagtttaa aactcagata gcccttgaac cagaacagat tcttagatat ggcagaggta
      841 ttgcccccat ctggatttct ggtgaaaata ttcctcaaga aaaggatatt ccagattgcc
      901 cctgtggtgc caagagaata ttggaattcc aggtcatgcc tcagctccta aactacctga
      961 aggctgacag actgggcaag agcattgact ggggcatcct ggctgtcttc acctgtgctg
     1021 agagctgcag cttgggtact ggctatacag aagaatttgt gtggaagcag gatgtaacag
     1081 atacaccgta aaggcatctt aaagccttga aaaatgttaa taatctttta taccttgcaa
     1141 ttccatttct gggattttat cctaaggaaa tacttatacc aaaaatagag gtgcagagat
     1201 gttgacagat tgcttacaca gtgtctactt attagtgaaa caaaagtgtc cagtgacagg
     1261 gaattaaata aattttggta catccacaga ggaaggctac acagtcttaa ttataacacc
     1321 tatattgaca acagacatac cattataggt ggtattcatg gtatgatcct attcttgtaa
     1381 aaatatttgt atgtatgcac agaaatctgc aaagatgtac acttagtgaa ctggttacca
     1441 acgaatggtg ggactaacta aaatggtctt tttacttata tgtgcatttc tttttataat
     1501 aaaaatgggt tatatgccta atgaagtcaa accatctcac tctgagcatt tcccacccta
     1561 ggtttttaaa acacaaaaat acttaggtaa aactcccaac aaacttgtct gatcattagc
     1621 tgattatcac aggctctagt atgtactgga agcccagaat atttgagaaa taccaaacct
     1681 caggttggtg agtatgatga acaggaaacc cagtaattct gaagcagcag tatcacagtt
     1741 ggcaggatga ggaacaacag tggctttgtg atcacagaac tggaatttaa agaggctgga
     1801 ccttcagaac tgatcttggt cagccagcgg ccctgcttac agatgagaca ctgaaaggca
     1861 aaaggcgatg gtcttccctt tccgtgtcag cattgtatac aggttcccta tcgcacatac
     1921 aagggttatg gaatgtaagc caaaataagg gtctggccta ggaggcagca gcctgaggaa
     1981 aggaaggccc tgaagtcagt tttcaaaggg ctgacccttg gcctattatg tttctgatac
     2041 atctgtttaa gcaagcggct cctaagacta cactaaggtt tcttccatcc cctagcagct
     2101 cacagttgac aattcccagt tctctcagca ccagtgatgc ctgcccttaa gacacattgc
     2161 tgttgatcag tgcttgaata ctgacggcta attctgataa atttctcagg cttatttcct
     2221 taatctacat tggctcacat tgtcccctaa cacatccctg ttaactgaaa tgcattgcca
     2281 ccataaatcc tcacgttttc ataggtaaca tcacttgcta atgtaattgt ctacttggct
     2341 attttatttg taatttaaaa agttctgtcc tagtagtcca tattatataa gtatacatat
     2401 gcaatttgta ttaattgtat aagatagtta tacatagcac catatgggaa actgcagtat
     2461 ggagtttctc ccatggggag gttatcagct acttaagagc tagaggatac tagtttcgaa
     2521 cctgggatgg ctaaatctat gaaaatcacc tataactatg gtgtcacagc cctgtggcta
     2581 ctggagtaag ttgtcatcaa ctagtgacaa gagctggtcg caacacttag taggaagcac
     2641 agtggcataa ggaaacctgg actagtgggg cctttatatc taaaattatg tattattcct
     2701 tataggcaga atctgtaagt acgttatgac tgctaatgac ttttaaagca aacatgttaa
     2761 cgatctttct atggtaaaaa ctgttatttg gggacatcac cagatgatgt ggacattctt
     2821 gcaggtattt tggcataccc aggcaagctg tcattggtgt atattccagt taacctctgg
     2881 agatgatcgt aacagtttac agggcctttc catttgggat ggatatatca agagggagac
     2941 aaactggtcc aaatcaccag aaagaaaatc tcacagcacc gacttggcat ctgtgttaaa
     3001 aaatagcaac tatatttaaa ataaactgta caacataaaa aatttaaatt aaaaaatgca
     3061 ttaagcaagt tgcctttaga aatgtgaaga cattttaaaa cactacaaga taatgagcaa
     3121 gtctcaccta cataatcatg gctccacaga cggtgccagt ccatgcatcc accatttctc
     3181 aacacctaca aagttttaag atctgcttgg ttcagatact gtccagccac agcagctccc
     3241 tctgctgtag agagcagcat attcagcttt gcctttttat ttcagatact gaatatcctt
     3301 tggcaatttc agatatcaca gcaaaaaaaa aaaaagttcc aagtgttttt ggcaa
//
