LOCUS       NM_024773               2431 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens lysine demethylase 8 (KDM8), transcript variant 2,
            mRNA.
ACCESSION   NM_024773
VERSION     NM_024773.3
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 2431)
  AUTHORS   Shen,J., Liu,G., Qi,H., Xiang,X. and Shao,J.
  TITLE     JMJD5 inhibits lung cancer progression by facilitating EGFR
            proteasomal degradation
  JOURNAL   Cell Death Dis 14 (10), 657 (2023)
   PUBMED   37813845
  REMARK    GeneRIF: JMJD5 inhibits lung cancer progression by facilitating
            EGFR proteasomal degradation.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2431)
  AUTHORS   Wang,H., Wang,J., Liu,J., Wang,Y., Xia,G. and Huang,X.
  TITLE     Jumonji-C domain-containing protein 5 suppresses proliferation and
            aerobic glycolysis in pancreatic cancer cells in a c-Myc-dependent
            manner
  JOURNAL   Cell Signal 93, 110282 (2022)
   PUBMED   35176452
  REMARK    GeneRIF: Jumonji-C domain-containing protein 5 suppresses
            proliferation and aerobic glycolysis in pancreatic cancer cells in
            a c-Myc-dependent manner.
REFERENCE   3  (bases 1 to 2431)
  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   4  (bases 1 to 2431)
  AUTHORS   Liu,H., Ramachandran,S., Fong,N., Phang,T., Lee,S., Parsa,P.,
            Liu,X., Harmacek,L., Danhorn,T., Song,T., Oh,S., Zhang,Q., Chen,Z.,
            Zhang,Q., Tu,T.H., Happoldt,C., O'Conner,B., Janknecht,R., Li,C.Y.,
            Marrack,P., Kappler,J., Leach,S. and Zhang,G.
  TITLE     JMJD5 couples with CDK9 to release the paused RNA polymerase II
  JOURNAL   Proc Natl Acad Sci U S A 117 (33), 19888-19895 (2020)
   PUBMED   32747552
  REMARK    GeneRIF: JMJD5 couples with CDK9 to release the paused RNA
            polymerase II.
REFERENCE   5  (bases 1 to 2431)
  AUTHORS   Yang,C.Y., Tsao,C.H., Hsieh,C.C., Lin,C.K., Lin,C.S., Li,Y.H.,
            Chang,W.C., Cheng,J.C., Lin,G.J., Sytwu,H.K., Wang,Y.L. and
            Chen,Y.W.
  TITLE     Downregulation of Jumonji-C domain-containing protein 5 inhibits
            proliferation by silibinin in the oral cancer PDTX model
  JOURNAL   PLoS One 15 (7), e0236101 (2020)
   PUBMED   32678829
  REMARK    GeneRIF: Downregulation of Jumonji-C domain-containing protein 5
            inhibits proliferation by silibinin in the oral cancer PDTX model.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2431)
  AUTHORS   Youn,M.Y., Yokoyama,A., Fujiyama-Nakamura,S., Ohtake,F.,
            Minehata,K., Yasuda,H., Suzuki,T., Kato,S. and Imai,Y.
  TITLE     JMJD5, a Jumonji C (JmjC) domain-containing protein, negatively
            regulates osteoclastogenesis by facilitating NFATc1 protein
            degradation
  JOURNAL   J Biol Chem 287 (16), 12994-13004 (2012)
   PUBMED   22375008
  REMARK    GeneRIF: JMJD5 is a post-translational co-repressor for NFATc1 that
            attenuates osteoclastogenesis.
REFERENCE   7  (bases 1 to 2431)
  AUTHORS   Jones,M.A., Covington,M.F., DiTacchio,L., Vollmers,C., Panda,S. and
            Harmer,S.L.
  TITLE     Jumonji domain protein JMJD5 functions in both the plant and human
            circadian systems
  JOURNAL   Proc Natl Acad Sci U S A 107 (50), 21623-21628 (2010)
   PUBMED   21115819
  REMARK    GeneRIF: Data show that both Arabidopsis jmjd5 mutant seedlings and
            mammalian cell cultures deficient for the human ortholog of this
            gene have similar fast-running circadian oscillations compared with
            WT.
REFERENCE   8  (bases 1 to 2431)
  AUTHORS   Hsia,D.A., Tepper,C.G., Pochampalli,M.R., Hsia,E.Y., Izumiya,C.,
            Huerta,S.B., Wright,M.E., Chen,H.W., Kung,H.J. and Izumiya,Y.
  TITLE     KDM8, a H3K36me2 histone demethylase that acts in the cyclin A1
            coding region to regulate cancer cell proliferation
  JOURNAL   Proc Natl Acad Sci U S A 107 (21), 9671-9676 (2010)
   PUBMED   20457893
  REMARK    GeneRIF: show that JMJD5 (now renamed KDM8), demethylates H3K36me2
            and is required for cell cycle progression.
REFERENCE   9  (bases 1 to 2431)
  AUTHORS   Shi,Y.
  TITLE     Histone lysine demethylases: emerging roles in development,
            physiology and disease
  JOURNAL   Nat Rev Genet 8 (11), 829-833 (2007)
   PUBMED   17909537
  REMARK    Review article
REFERENCE   10 (bases 1 to 2431)
  AUTHORS   Suzuki,T., Minehata,K., Akagi,K., Jenkins,N.A. and Copeland,N.G.
  TITLE     Tumor suppressor gene identification using retroviral insertional
            mutagenesis in Blm-deficient mice
  JOURNAL   EMBO J 25 (14), 3422-3431 (2006)
   PUBMED   16858412
  REMARK    GeneRIF: Identifies five novel candidate tumor suppressor genes in
            mouse, including Pou2f2, Hivep3, Jmjd5, Fbxl10 and a protein
            similar to human N4BP3.
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BC027911.1, AK225066.1 and
            BQ022832.1.
            
            On Jun 2, 2019 this sequence version replaced NM_024773.2.
            
            Summary: This gene likely encodes a histone lysine demethylase.
            Studies of a similar protein in mouse indicate a potential role for
            this protein as a tumor suppressor. Alternatively spliced
            transcript variants have been described.[provided by RefSeq, Feb
            2009].
            
            Transcript Variant: This variant (2) uses an alternate 5' terminal
            exon and initiates translation at a downstream start codon,
            compared to variant 1. The encoded isoform (2) is shorter than
            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 :: SRR1803613.136893.1,
                                           SRR1803614.136097.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1968540
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000286096.9/ ENSP00000286096.5
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1774              BC027911.1         20-1793
            1775-1775           AK225066.1         1772-1772
            1776-2121           BC027911.1         1795-2140
            2122-2431           BQ022832.1         19-328              c
FEATURES             Location/Qualifiers
     source          1..2431
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="16"
                     /map="16p12.1"
     gene            1..2431
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /note="lysine demethylase 8"
                     /db_xref="GeneID:79831"
                     /db_xref="HGNC:HGNC:25840"
                     /db_xref="MIM:611917"
     exon            1..111
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /inference="alignment:Splign:2.1.0"
     exon            112..640
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /inference="alignment:Splign:2.1.0"
     CDS             143..1393
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /EC_number="1.14.11.73"
                     /note="isoform 2 is encoded by transcript variant 2;
                     lysine-specific demethylase 8; jmjC domain-containing
                     protein 5; JmjC arginyl-hydroxylase; jumonji
                     domain-containing protein 5; jumonji domain containing 5;
                     lysine (K)-specific demethylase 8; arginyl C3-hydroxylase
                     KDM8; jumonji C domain-containing protein 5; bifunctional
                     peptidase and arginyl-hydroxylase JMJD5; L-arginine
                     (3R)-hydroxylase KDM8"
                     /codon_start=1
                     /product="bifunctional peptidase and arginyl-hydroxylase
                     JMJD5 isoform 2"
                     /protein_id="NP_079049.2"
                     /db_xref="CCDS:CCDS10627.1"
                     /db_xref="GeneID:79831"
                     /db_xref="HGNC:HGNC:25840"
                     /db_xref="MIM:611917"
                     /translation="MAGDTHCPAEPLAREGTLWEALRALLPHSKEDLKLDLGEKVERS
                     VVTLLQRATELFYEGRRDECLQSSEVILDYSWEKLNTGTWQDVDKDWRRVYAIGCLLK
                     ALCLCQAPEDANTVAAALRVCDMGLLMGAAILGDILLKVAAILQTHLPGKRPARGSLP
                     EQPCTKKARADHGLIPDVKLEKTVPRLHRPSLQHFREQFLVPGRPVILKGVADHWPCM
                     QKWSLEYIQEIAGCRTVPVEVGSRYTDEEWSQTLMTVNEFISKYIVNEPRDVGYLAQH
                     QLFDQIPELKQDISIPDYCSLGDGEEEEITINAWFGPQGTISPLHQDPQQNFLVQVMG
                     RKYIRLYSPQESGALYPHDTHLLHNTSQVDVENPDLEKFPKFAKAPFLSCILSPGEIL
                     FIPVKYWHYVRALDLSFSVSFWWS"
     exon            641..807
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /inference="alignment:Splign:2.1.0"
     exon            808..940
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /inference="alignment:Splign:2.1.0"
     exon            941..985
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /inference="alignment:Splign:2.1.0"
     exon            986..1135
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /inference="alignment:Splign:2.1.0"
     exon            1136..1228
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /inference="alignment:Splign:2.1.0"
     exon            1229..2431
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /inference="alignment:Splign:2.1.0"
     polyA_site      2381
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
     regulatory      2407..2412
                     /regulatory_class="polyA_signal_sequence"
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /note="hexamer: AATAGA"
     polyA_site      2431
                     /gene="KDM8"
                     /gene_synonym="JMJD5"
                     /note="major polyA site"
ORIGIN      
        1 actcctatgc tagcctctgg ctcctcaggg gacacagccg agtggtcgga ccaaacgcaa
       61 cgagtcttcg ccagcccaaa ggcgactcga caccgtccca gctgaagaga ggcacgggac
      121 tgaaccagct ggtggtggcc cgatggctgg agacacccac tgccccgcag agcccctggc
      181 cagagaaggc actttatggg aggccctcag ggcgctcctg ccgcacagta aagaagacct
      241 gaagttggac ctcggggaga aagtggagag gagcgtggtg acattgttgc agcgagccac
      301 tgagctcttc tacgagggca ggagggacga gtgtctgcag agcagcgagg tgatcctgga
      361 ctactcctgg gagaagctca acacgggcac atggcaggac gtagacaaag actggcgccg
      421 ggtctacgcc atcggctgcc tcctgaaagc cctgtgtctg tgccaggcac ctgaggatgc
      481 caacactgtg gccgcagccc tgcgggtctg tgacatgggc ctgctgatgg gggcagccat
      541 cctgggggac atccttctta aagtcgctgc catcctccag acacacctcc ctggaaagag
      601 gcctgcccgt ggctccctcc cagagcaacc ctgcacaaag aaagcaaggg cggaccatgg
      661 tttgattcca gatgtgaagt tagaaaaaac agtcccccgg ctgcaccgtc cgtccctcca
      721 gcatttcagg gagcagtttt tggttccagg gaggcccgtg atcctgaaag gcgtggctga
      781 ccactggccg tgcatgcaga agtggagttt ggagtatatc caggagatcg ctggctgccg
      841 aactgtccca gtggaagttg gttcgaggta cacagatgag gaatggtccc agaccctcat
      901 gacggtcaac gagttcatca gcaaatacat cgtgaatgag ccaagggacg tcgggtacct
      961 tgctcagcac cagctctttg accagatccc ggagttgaag caggacatca gcatccccga
     1021 ctactgcagc ctgggcgatg gggaggagga ggaaatcacc atcaatgcct ggtttggtcc
     1081 ccagggaacc atctccccac tacatcagga tccccagcaa aacttcctag tgcaggtgat
     1141 ggggaggaag tacatccggc tgtattcccc gcaggagtca ggggctctgt accctcatga
     1201 cacgcacctt ctccataaca cgagccaggt tgacgtggag aatcccgacc tggaaaagtt
     1261 ccccaagttt gccaaggccc cattcctgtc ctgcatcctg tctcctggag agatcctgtt
     1321 catcccggtg aaatactggc attacgtgcg ggctctggat ttgagcttct cggtcagctt
     1381 ctggtggtcg tagccaggat aggagctgaa agggcctgac atgcagacag cattcatctg
     1441 ttcactaatt tcctgggtcc tggaatctat agagacaagc aggactgaac ctgtgtcctg
     1501 aagagccttc actgcccagt ggcagccctg gggggctgag ctccagcact ggacaggcac
     1561 agagcagggg ctgcccagga aggagcacac tccaggccag gggtgcatgg cagaggaagg
     1621 tggggagagc ccagaaggac attgcagaca gacagcctgc atggggactc tggcatcaga
     1681 aagccgaatg tttttgggaa acgggtgggt cacacaggca ggggtgaaac atgggctctg
     1741 aggttggcta cctgattcaa acccggccgc gctgtgcacc tgctgggtga cttggccagg
     1801 atcccccact tcgctgtgcc catatggaaa agagggcaag gccagtcctc actgccgagg
     1861 gccgagaagg cggtgccgag cccctgctgc tgcatgaacc ttagccgctg tcactgatcc
     1921 caattactct gatccttttg cccttccttc ccataacggc ctgctggacg ccacagcctg
     1981 aatactggag agagctgggc attgcccagg tcacaggaga gagtccgtag agacctgcgc
     2041 aggagccggg acccctgctg agcagtggga gctttctgtc atccccatgg ctcaaggata
     2101 acctacctgc ctgcagagaa gtgcgaaggt cttgctggat gacttttcac ccgcactcac
     2161 ccaggagcag gctcccaagt gaagaaacca ccgaaccatc accagctcct agaagcctcc
     2221 ctcctaccac cttctagtca ccatccccca gaagtaatga ctctcaaacc tgggggattt
     2281 gaggccaggg ggagagccag gctctatgct ttctgtaatt gtgtctcgtt tgtgtgcacg
     2341 caggtttgtt ttatgttttg gccattaaga ttttccccag ccctctgttt tttgtttttt
     2401 aaactaaata gagatgggat cttgctatgt t
//
