LOCUS       NM_001419852            5485 bp    mRNA    linear   ROD 03-APR-2024
DEFINITION  Rattus norvegicus lysine demethylase 5D (Kdm5d), mRNA.
ACCESSION   NM_001419852
VERSION     NM_001419852.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 5485)
  AUTHORS   Komura,K., Jeong,S.H., Hinohara,K., Qu,F., Wang,X., Hiraki,M.,
            Azuma,H., Lee,G.S., Kantoff,P.W. and Sweeney,C.J.
  TITLE     Resistance to docetaxel in prostate cancer is associated with
            androgen receptor activation and loss of KDM5D expression
  JOURNAL   Proc Natl Acad Sci U S A 113 (22), 6259-6264 (2016)
   PUBMED   27185910
REFERENCE   2  (bases 1 to 5485)
  AUTHORS   Cortez,D., Marin,R., Toledo-Flores,D., Froidevaux,L., Liechti,A.,
            Waters,P.D., Grutzner,F. and Kaessmann,H.
  TITLE     Origins and functional evolution of Y chromosomes across mammals
  JOURNAL   Nature 508 (7497), 488-493 (2014)
   PUBMED   24759410
REFERENCE   3  (bases 1 to 5485)
  AUTHORS   Pink,C.J., Swaminathan,S.K., Dunham,I., Rogers,J., Ward,A. and
            Hurst,L.D.
  TITLE     Evidence that replication-associated mutation alone does not
            explain between-chromosome differences in substitution rates
  JOURNAL   Genome Biol Evol 1, 13-22 (2009)
   PUBMED   20333173
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 5485)
  AUTHORS   Iwase,S., Lan,F., Bayliss,P., de la Torre-Ubieta,L., Huarte,M.,
            Qi,H.H., Whetstine,J.R., Bonni,A., Roberts,T.M. and Shi,Y.
  TITLE     The X-linked mental retardation gene SMCX/JARID1C defines a family
            of histone H3 lysine 4 demethylases
  JOURNAL   Cell 128 (6), 1077-1088 (2007)
   PUBMED   17320160
REFERENCE   5  (bases 1 to 5485)
  AUTHORS   Millrain,M., Scott,D., Addey,C., Dewchand,H., Ellis,P., Ehrmann,I.,
            Mitchell,M., Burgoyne,P., Simpson,E. and Dyson,J.
  TITLE     Identification of the immunodominant HY H2-D(k) epitope and
            evaluation of the role of direct and indirect antigen presentation
            in HY responses
  JOURNAL   J Immunol 175 (11), 7209-7217 (2005)
   PUBMED   16301625
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000022.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: GATN01000004.1, SRR26643295.61880.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-326               JAXUCZ010000022.1  564486-564811
            327-404             JAXUCZ010000022.1  565834-565911
            405-527             JAXUCZ010000022.1  566911-567033
            528-698             JAXUCZ010000022.1  567266-567436
            699-833             JAXUCZ010000022.1  567921-568055
            834-972             JAXUCZ010000022.1  582068-582206
            973-1136            JAXUCZ010000022.1  582308-582471
            1137-1295           JAXUCZ010000022.1  587553-587711
            1296-1415           JAXUCZ010000022.1  590817-590936
            1416-1574           JAXUCZ010000022.1  591021-591179
            1575-1756           JAXUCZ010000022.1  620812-620993
            1757-1919           JAXUCZ010000022.1  621081-621243
            1920-2039           JAXUCZ010000022.1  631017-631136
            2040-2234           JAXUCZ010000022.1  631261-631455
            2235-2416           JAXUCZ010000022.1  631729-631910
            2417-2541           JAXUCZ010000022.1  631989-632113
            2542-2689           JAXUCZ010000022.1  632252-632399
            2690-2786           JAXUCZ010000022.1  640797-640893
            2787-3145           JAXUCZ010000022.1  641704-642062
            3146-3284           JAXUCZ010000022.1  643595-643733
            3285-3464           JAXUCZ010000022.1  644579-644758
            3465-3602           JAXUCZ010000022.1  644897-645034
            3603-4199           JAXUCZ010000022.1  645217-645813
            4200-4281           JAXUCZ010000022.1  646233-646314
            4282-4481           JAXUCZ010000022.1  646444-646643
            4482-5485           JAXUCZ010000022.1  646739-647742
FEATURES             Location/Qualifiers
     source          1..5485
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="Y"
                     /map="Yq11"
     gene            1..5485
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /note="lysine demethylase 5D"
                     /db_xref="GeneID:100312983"
                     /db_xref="RGD:2314436"
     exon            1..326
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     CDS             177..4829
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /note="lysine (K)-specific demethylase 5D; lysine-specific
                     demethylase 5D"
                     /codon_start=1
                     /product="lysine demethylase 5D"
                     /protein_id="NP_001406781.1"
                     /db_xref="GeneID:100312983"
                     /db_xref="RGD:2314436"
                     /translation="MKPESDDFLPPPECPVFEPSWAEFRDPLGYIAKIRPIAEKSGIC
                     KIRPPADWQPPFAVEIDNFRFTPRIQRLNELEAQTRVKLNYLDQIAKFWEIQGSSLKI
                     PNVERKILDLYSLNKIVIEEGGYEAICKDRRWARVAQRLNYPSGKNIGSLLRSHYERI
                     IYPYEMFQSGANHVQCNTDPFDSEEKDKEYKPHSIPLRQSVQPLKFSCYSRRAKRLQP
                     EPEPTEEDIEKNPELKKLQIYGAGPKMIGLGLMAKEKTLRKKGSIQPDKEEVTCPATV
                     IVKGEASGFGKVTSAFSDKNLNHNFKPCTEMTTQLRNNHSNTQFMDSYVCRICSRGDE
                     DDRFLLCVGCNDNYHIFCLLPPLSEVPKGVWRCPKCILAECKRPLEAFGFEQATQEYT
                     LQSFGEMADSFKADYFNMPVHMVPTEVVEKEFWRLVSSIEEDVTVEYGADIHSKEFGS
                     GFPVNNSKWTLSPEEKEYAASGWNLNVMPVLDQSVLCHINADISGMKVPWLYVGMVFS
                     AFCWHIEDHWSYSINYLHWGEPKTWYGVPSLAAEHLEDVMKTLTPELFDSQPDLLHQL
                     VTLMNPNTLMSHGVPVVRTNQCAGEFVITFPRAYHSGFNQGYNFAEAVNFCTADWLPV
                     GRQCIEHYRRLRRYCVFSHEELICKMAAFPEKLDLNLAVAVHKEMFIMVQEERRLRKT
                     LLEKGITEAEREAFELLPDDERQCIKCKTTCFLSALACYDCPDGLVCLSHINDLCKCS
                     RSRQYLRYRYTLDELPAMLQKLKIRAESFDNWANKVQAALEVEDGRKRSFEELRALET
                     EAHDRQFPNNDLLQRLKKCLTEAEACISQVLELVNNSEDRLETPQLTLTELQILLKQM
                     CTLPCTIHQIDEVKDVLQQVETYQIETREALTSLPYSLEILQSLMEKGQQLRVEVPEA
                     HQLEELLEQAQWLDQVKQALAPSGQKHSLVIMKKLLVMGTKLASSPSVNKARAELQEL
                     LTIAERWEEKALFCLDASQKHSPATLEVIIREAENIPVYLPNIQSLKEALTKAQAWIA
                     DVNEIQNGDHYPCLDDLEGLVAVGRDLPVELEELKQLENQVLTAHSWKEKASKTFLKK
                     NSCYTLLEVLCPCADAGSVSTKRSRWIEKEMGLYKYDTELLGLSAQDLRDPGSVIMAF
                     KEGEEKEKEGILHLRHINSTKPSPMSSSINASATSICICGQVRAGVEALRCDLCHDWF
                     HGQCVTVPHLLSSLRASHTSSQLLAWWEWDTKFLCPLCMRSRRPRLETILSLLVGLQR
                     LSVRLPEGEALQCLTERAIGWQGRARQALASENVTALLKQLAKSRQQLQDELRHEKPP
                     TSHSGLPSECLTEDSDKDILKEEEELVLNEDMLKNSEKIVPKESSCERGEELLPSLLS
                     QLTGPVLELPEATRAPLEELMMEGDLLEVTLDENHSIWQLLQAGQNPNLERIHTLLEL
                     EKPEDPKNWSEEQTPERRQRRRQKVVLSRKGEDLTQKELASKRARSSRIKPKGKQFQE
                     PIHGDNVLLSHHTEHTNILKGNMNSVQGKDPSPSSTFPSLPPLLHLSYFHQQKLQQ"
     exon            327..404
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            405..527
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            528..698
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            699..833
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            834..972
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            973..1136
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            1137..1295
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            1296..1415
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            1416..1574
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            1575..1756
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            1757..1919
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            1920..2039
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            2040..2234
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            2235..2416
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            2417..2541
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            2542..2689
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            2690..2786
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            2787..3145
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            3146..3284
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            3285..3464
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            3465..3602
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            3603..4199
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            4200..4281
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            4282..4481
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
     exon            4482..5485
                     /gene="Kdm5d"
                     /gene_synonym="Jarid1d"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 acattgtgat ctaaaaatgg tggacctgaa cagggaggtg aatatttaag gatgtggaat
       61 taagccgact ctgaaatttg gaaaaaaata agttcctgtg ggtcatcgca gtgagtagga
      121 aattccattc gccttttaaa atcgaatcac gttttataac cgcgttttgg gaggacatga
      181 agccagaatc tgacgacttt ctaccgccgc ccgagtgccc ggtgtttgag ccgagttggg
      241 cggaattccg agatccactt ggctatatag ctaaaatcag acctattgcg gagaagtcag
      301 gcatttgcaa gatccgccca cctgcggatt ggcagcctcc ttttgctgta gaaattgata
      361 acttcagatt tactcctcga attcagagac ttaatgaact ggaggcccag actagagtaa
      421 aactgaacta tttggatcaa attgcaaaat tctgggaaat tcaaggctct tccttaaaga
      481 tacctaatgt ggaaaggaaa atcttggacc tttacagcct taataagatt gtgatagagg
      541 aaggtggata tgaagcaatc tgcaaagacc gtcggtgggc ccgtgttgcc caacgcctta
      601 attacccatc aggaaaaaac attggttccc ttctacggtc tcactatgaa cggatcattt
      661 acccttatga aatgtttcag tctggagcta atcatgtgca atgtaacaca gatccatttg
      721 acagtgaaga aaaagacaag gagtacaaac ctcatagcat ccctctgaga cagtctgttc
      781 agccattaaa attcagttgc tacagtagac gagcaaaaag gctacaacct gagccagaac
      841 ccacagaaga agacattgag aaaaacccag agctaaaaaa actacagata tatggggcag
      901 gccccaagat gataggcttg ggcctcatgg caaaggagaa gactctgaga aagaaaggta
      961 gcattcaacc agataaagaa gaagtgacat gccctgcaac tgttatagtg aagggggaag
     1021 ccagtgggtt tggaaaagtg acatcagcat tttctgacaa gaacttaaat cacaatttca
     1081 aaccttgtac tgagatgact acgcagctac ggaacaatca cagcaatacc cagtttatgg
     1141 attcatatgt ttgccgaata tgctctcgtg gggatgaaga tgatagattt ctgctctgtg
     1201 ttgggtgcaa cgacaattac catatctttt gcctattgcc accgctttct gaagtcccca
     1261 agggggtatg gaggtgccca aagtgtatct tagcggaatg taagcgtccc ctggaagctt
     1321 ttggctttga gcaagctaca caggagtata cgttgcagag ttttggtgag atggctgatt
     1381 ccttcaaggc tgactacttc aacatgcctg tacatatggt acctacagaa gttgtggaaa
     1441 aggaattctg gaggctggtg agcagcattg aggaggatgt gacagttgag tatggagcag
     1501 acattcactc caaagaattt ggcagtgggt ttcctgtcaa caatagcaaa tggaccttat
     1561 ctcctgaaga aaaggagtat gctgccagtg gttggaatct caatgtgatg ccagttctgg
     1621 atcagtctgt tctctgccac atcaatgcag acatctcagg catgaaagtg ccttggttat
     1681 atgtgggcat ggtgttttca gcattttgtt ggcatattga ggatcactgg agttactcca
     1741 ttaactacct gcactggggt gaaccaaaga cctggtatgg agtaccttct ctagcagcag
     1801 aacacttgga ggatgttatg aagacactta cacccgagtt gtttgacagc cagcctgacc
     1861 tcctacacca acttgtcact ttgatgaatc ccaacactct catgtcacat ggagtgccag
     1921 ttgttcgtac aaaccagtgt gcaggggaat ttgtcattac tttccctcgt gcttaccaca
     1981 gtggctttaa tcaaggctat aactttgctg aggcagttaa cttttgcact gctgattggc
     2041 tacctgttgg acgccagtgt attgaacact accgccgact ccggcgctat tgtgtctttt
     2101 cccatgagga gctcatctgc aaaatggctg cattcccaga gaagttggat ctaaatctag
     2161 cagtggcagt tcacaaggag atgttcatta tggtacagga ggagcggcgc ctacggaaga
     2221 ccttgttgga gaagggcatc acggaagctg agcgagaggc ctttgagcta ctcccagatg
     2281 atgagcgtca gtgcatcaag tgtaagacca cgtgtttcct atcagccttg gcctgttatg
     2341 actgtccaga tggtcttgtc tgcctttctc atatcaatga tctgtgcaaa tgctcaagga
     2401 gccgacagta cttacggtac aggtacacat tggatgaact gcctgctatg ttacaaaagt
     2461 tgaagattcg ggccgagtca tttgacaact gggccaacaa agtacaagca gccctagagg
     2521 tagaggacgg acggaaacgg agttttgaag agctaagagc actggaaact gaggctcatg
     2581 atagacaatt tcctaataat gacctgcttc agcgattgaa gaaatgtctt actgaagcag
     2641 aggcttgcat ttcccaagtc ctagaactag tcaataattc agaggacagg ttagaaacac
     2701 cacaactcac cctgactgaa ctacagattc ttctcaaaca gatgtgcact ctgccgtgta
     2761 ccatacatca gattgatgaa gttaaggatg ttctgcagca ggtggagaca tatcaaattg
     2821 agacccgtga ggctctaact tcactgcctt atagtttaga aatacttcag tccctgatgg
     2881 aaaagggaca gcagcttcgt gtggaagttc ctgaagctca tcaacttgaa gagctgttgg
     2941 agcaggcaca atggctagat caagtgaagc aggccctggc tccctcaggc cagaaacact
     3001 ctctggtcat catgaagaaa cttttggtta tgggtaccaa gttagcctcc agcccttctg
     3061 tgaacaaagc tcgagcagag ctacaagaac tgcttactat tgcagagcgt tgggaggaaa
     3121 aggccctttt ctgcttagac gctagccaaa agcattctcc agccactttg gaagttataa
     3181 tacgtgaggc agaaaacatc cctgtctact tgcctaacat ccagtctctc aaggaagctc
     3241 tgactaaggc acaggcttgg attgctgatg tgaatgagat tcaaaatggt gatcactacc
     3301 cctgtttgga tgatttggag gggcttgtag ctgtgggtcg ggatttacct gtggagctag
     3361 aggaactaaa acagctggag aatcaggtac tgacagcaca ttcctggaaa gagaaagctt
     3421 ctaagacttt tctcaagaag aattcttgct acacactgtt ggaggttctc tgcccatgtg
     3481 cagatgctgg ttctgtcagc accaagcgca gtcggtggat tgaaaaggag atggggttat
     3541 acaaatatga cacagaattg ctggggcttt ctgcacagga tctcagggac ccaggttctg
     3601 tgatcatggc ctttaaggaa ggggaagaga aagaaaaaga aggtatcttg cacttgcgtc
     3661 acatcaactc aactaagccc agtccaatgt cctcatcaat caatgcctct gcaacctcca
     3721 tctgtatatg tgggcaggtc cgtgcaggag tagaagctct gcggtgtgat ctctgtcatg
     3781 actggttcca tggacaatgt gtgactgtac cccacctact cagctcctta agggctagtc
     3841 atacctcatc tcaactgcta gcttggtggg aatgggacac caaattcctg tgcccactgt
     3901 gtatgcgatc aaggcgtcca cgactggaga ccatattgtc attgctggta ggactacaga
     3961 gactgtctgt aaggctgcct gagggtgagg ccctacaatg cctcacagag agagccattg
     4021 gttggcaggg ccgtgccaga caggctctag cttctgagaa tgtgactgct ttgttgaaac
     4081 agctagcaaa atcccgccaa caactacagg atgaattgag acatgagaag ccgcctacat
     4141 ctcattcagg tcttccctct gagtgtctca cagaggatag tgacaaggat atccttaagg
     4201 aagaggagga gttggtacta aatgaagaca tgctgaaaaa ttctgagaag attgttccaa
     4261 aggaaagttc atgtgaaaga ggtgaggaac tgttgccttc gctattatcc caattaactg
     4321 gtcctgtact ggaactgcct gaagccaccc gggccccact agaggagctt atgatggaag
     4381 gagatttact tgaagttacc ctagatgaga accacagcat ttggcagctg ctgcaggctg
     4441 gacagaatcc taatctagag cggattcata cacttctaga gcttgagaag cctgaggacc
     4501 caaagaattg gtcagaggaa caaacaccag agaggcggca gcggcgaagg caaaaggtcg
     4561 ttctgagtag aaagggtgag gatcttactc aaaaagagct agcatcaaaa agagctagga
     4621 gttcaaggat taagcctaag ggaaaacagt ttcaagagcc aatacacggg gataatgtgc
     4681 tcttgtcaca ccatacagaa catacaaaca tcttaaaagg gaacatgaac agtgtacaag
     4741 ggaaggatcc aagcccttca tctacttttc cttccttacc acctttgcta catctctctt
     4801 attttcatca gcaaaaatta caacaatagt atgtgattat ttttttcctt gcttagtctt
     4861 tccttcctta agcctttctc ctttctctct ccctttttct ttccttcctc ctcctttctc
     4921 ctttgttgtt ccctagcttc cctccatttt actctattct ctgcccttaa ttccctcaga
     4981 ttcccacaaa atatttattc cttacctaca gcttgactac aaattatttt atccttactc
     5041 ctaatacatg tttatgcctt cgttcctaag aactattcca tttacatgtt tcccaaaatt
     5101 ttatcaacaa tatttctgga attactgtag ataaagtgat gttcttgttc ttagttacct
     5161 ctattctaat ctggagaagc aaaaataaaa tttgagaatg ctaaagttta ttaatcttta
     5221 tttttaaatc cttcatcatc ctctgtgtaa ttccacatcg tgtacttatt aaaacaagtg
     5281 ttttttattt tatattttta ttccatttct tacctttttc tctttggttc acattctaaa
     5341 aaaaatagta ttttgtaatt cttaaggaaa aagaatacag gaatgcaaac ttaccatagt
     5401 tgtttatttt taattttgtt tcttttgttg ttggctgttg ttgttgtcat taaaaaaata
     5461 aataaaacat ttgcttggga ctgca
//
