LOCUS       NM_001009999            3085 bp    mRNA    linear   PRI 26-OCT-2024
DEFINITION  Homo sapiens lysine demethylase 1A (KDM1A), transcript variant 1,
            mRNA.
ACCESSION   NM_001009999
VERSION     NM_001009999.3
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 3085)
  AUTHORS   Liu,Y., Chen,Y., Batzorig,U., Li,J., Fernandez-Mendez,C.,
            Mahapatra,S., Li,F., Sam,S., Dokoshi,T., Hong,S.P., Nakatsuji,T.,
            Gallo,R.L. and Sen,G.L.
  TITLE     The transcription regulators ZNF750 and LSD1/KDM1A dampen
            inflammation on the skin's surface by silencing pattern recognition
            receptors
  JOURNAL   Immunity 57 (10), 2296-2309 (2024)
   PUBMED   39353440
  REMARK    GeneRIF: The transcription regulators ZNF750 and LSD1/KDM1A dampen
            inflammation on the skin's surface by silencing pattern recognition
            receptors.
REFERENCE   2  (bases 1 to 3085)
  AUTHORS   Zhang,N., Chen,Z., Xin,B., Shi,Y., Yao,Y., Yang,J., Wang,X. and
            Hu,X.
  TITLE     LSD1 inhibits the invasion and migration of breast cancer through
            exosomes
  JOURNAL   Sci Rep 14 (1), 20817 (2024)
   PUBMED   39242625
  REMARK    GeneRIF: LSD1 inhibits the invasion and migration of breast cancer
            through exosomes.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3085)
  AUTHORS   Zhao,Y., Zheng,Y., Fu,J., Zhang,J., Shao,H., Liu,S., Lai,J.,
            Zhou,X., Liang,R., Jia,L., Cui,W., Yang,J., Wu,C. and Wang,L.
  TITLE     KDM1A, a potent and selective target, for the treatment of
            DNMT3A-deficient non-small cell lung cancer
  JOURNAL   Br J Cancer 131 (4), 655-667 (2024)
   PUBMED   38951697
  REMARK    GeneRIF: KDM1A, a potent and selective target, for the treatment of
            DNMT3A-deficient non-small cell lung cancer.
REFERENCE   4  (bases 1 to 3085)
  AUTHORS   Jing,T., Wei,D., Xu,X., Wu,C., Yuan,L., Huang,Y., Liu,Y., Jiang,Y.
            and Wang,B.
  TITLE     Transposable elements-mediated recruitment of KDM1A epigenetically
            silences HNF4A expression to promote hepatocellular carcinoma
  JOURNAL   Nat Commun 15 (1), 5631 (2024)
   PUBMED   38965210
  REMARK    GeneRIF: Transposable elements-mediated recruitment of KDM1A
            epigenetically silences HNF4A expression to promote hepatocellular
            carcinoma.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3085)
  AUTHORS   Venhuizen,J., van Bergen,M.G.J.M., Bergevoet,S.M., Gilissen,D.,
            Spruijt,C.G., Wingens,L., van den Akker,E., Vermeulen,M.,
            Jansen,J.H., Martens,J.H.A. and van der Reijden,B.A.
  TITLE     GFI1B and LSD1 repress myeloid traits during megakaryocyte
            differentiation
  JOURNAL   Commun Biol 7 (1), 374 (2024)
   PUBMED   38548886
  REMARK    GeneRIF: GFI1B and LSD1 repress myeloid traits during megakaryocyte
            differentiation.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3085)
  AUTHORS   Lee,M.G., Wynder,C., Cooch,N. and Shiekhattar,R.
  TITLE     An essential role for CoREST in nucleosomal histone 3 lysine 4
            demethylation
  JOURNAL   Nature 437 (7057), 432-435 (2005)
   PUBMED   16079794
  REMARK    GeneRIF: nucleosomal demethylation is the result of CoREST
            enhancing the association between BHC110 and nucleosomes
REFERENCE   7  (bases 1 to 3085)
  AUTHORS   Forneris,F., Binda,C., Vanoni,M.A., Mattevi,A. and Battaglioli,E.
  TITLE     Histone demethylation catalysed by LSD1 is a flavin-dependent
            oxidative process
  JOURNAL   FEBS Lett 579 (10), 2203-2207 (2005)
   PUBMED   15811342
  REMARK    GeneRIF: in vivo LSD1 might not necessarily function as an oxidase,
            but it might use alternative electron acceptors
REFERENCE   8  (bases 1 to 3085)
  AUTHORS   Shi,Y., Lan,F., Matson,C., Mulligan,P., Whetstine,J.R., Cole,P.A.,
            Casero,R.A. and Shi,Y.
  TITLE     Histone demethylation mediated by the nuclear amine oxidase homolog
            LSD1
  JOURNAL   Cell 119 (7), 941-953 (2004)
   PUBMED   15620353
  REMARK    GeneRIF: results thus identify a histone demethylase conserved from
            S. pombe to human and reveal dynamic regulation of histone
            methylation by both histone methylases and demethylases
REFERENCE   9  (bases 1 to 3085)
  AUTHORS   Hakimi,M.A., Dong,Y., Lane,W.S., Speicher,D.W. and Shiekhattar,R.
  TITLE     A candidate X-linked mental retardation gene is a component of a
            new family of histone deacetylase-containing complexes
  JOURNAL   J Biol Chem 278 (9), 7234-7239 (2003)
   PUBMED   12493763
REFERENCE   10 (bases 1 to 3085)
  AUTHORS   Hakimi,M.A., Bochar,D.A., Chenoweth,J., Lane,W.S., Mandel,G. and
            Shiekhattar,R.
  TITLE     A core-BRAF35 complex containing histone deacetylase mediates
            repression of neuronal-specific genes
  JOURNAL   Proc Natl Acad Sci U S A 99 (11), 7420-7425 (2002)
   PUBMED   12032298
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BG717076.1, BC048134.1,
            BC040194.2 and BC025362.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Jun 2, 2019 this sequence version replaced NM_001009999.2.
            
            Summary: This gene encodes a nuclear protein containing a SWIRM
            domain, a FAD-binding motif, and an amine oxidase domain. This
            protein is a component of several histone deacetylase complexes,
            though it silences genes by functioning as a histone demethylase.
            Alternative splicing results in multiple transcript variants.
            [provided by RefSeq, Apr 2009].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (a).
            
            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 :: SRR1660805.236503.1,
                                           SRR1803612.147078.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2145743, SAMEA2154665
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000400181.9/ ENSP00000383042.5
            RefSeq Select criteria :: based on manual assertion, conservation
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-61                BG717076.1         28-88
            62-362              BC048134.1         3-303
            363-1604            BC040194.2         338-1579
            1605-3085           BC025362.1         218-1698
FEATURES             Location/Qualifiers
     source          1..3085
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p36.12"
     gene            1..3085
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /note="lysine demethylase 1A"
                     /db_xref="GeneID:23028"
                     /db_xref="HGNC:HGNC:29079"
                     /db_xref="MIM:609132"
     exon            1..480
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     CDS             130..2760
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /EC_number="1.14.99.66"
                     /note="isoform a is encoded by transcript variant 1; amine
                     oxidase (flavin containing) domain 2; FAD-binding protein
                     BRAF35-HDAC complex, 110 kDa subunit; BRAF35-HDAC complex
                     protein BHC110; lysine-specific histone demethylase 1;
                     flavin-containing amine oxidase domain-containing protein
                     2; lysine (K)-specific demethylase 1A; [histone
                     H3]-dimethyl-L-lysine(4) FAD-dependent demethylase 1A"
                     /codon_start=1
                     /product="lysine-specific histone demethylase 1A isoform
                     a"
                     /protein_id="NP_001009999.1"
                     /db_xref="CCDS:CCDS53278.1"
                     /db_xref="GeneID:23028"
                     /db_xref="HGNC:HGNC:29079"
                     /db_xref="MIM:609132"
                     /translation="MLSGKKAAAAAAAAAAAATGTEAGPGTAGGSENGSEVAAQPAGL
                     SGPAEVGPGAVGERTPRKKEPPRASPPGGLAEPPGSAGPQAGPTVVPGSATPMETGIA
                     ETPEGRRTSRRKRAKVEYREMDESLANLSEDEYYSEEERNAKAEKEKKLPPPPPQAPP
                     EEENESEPEEPSGQAGGLQDDSSGGYGDGQASGVEGAAFQSRLPHDRMTSQEAACFPD
                     IISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAPYNSDTVLVHRVHSYL
                     ERHGLINFGIYKRIKPLPTKKTGKVIIIGSGVSGLAAARQLQSFGMDVTLLEARDRVG
                     GRVATFRKGNYVADLGAMVVTGLGGNPMAVVSKQVNMELAKIKQKCPLYEANGQADTV
                     KVPKEKDEMVEQEFNRLLEATSYLSHQLDFNVLNNKPVSLGQALEVVIQLQEKHVKDE
                     QIEHWKKIVKTQEELKELLNKMVNLKEKIKELHQQYKEASEVKPPRDITAEFLVKSKH
                     RDLTALCKEYDELAETQGKLEEKLQELEANPPSDVYLSSRDRQILDWHFANLEFANAT
                     PLSTLSLKHWDQDDDFEFTGSHLTVRNGYSCVPVALAEGLDIKLNTAVRQVRYTASGC
                     EVIAVNTRSTSQTFIYKCDAVLCTLPLGVLKQQPPAVQFVPPLPEWKTSAVQRMGFGN
                     LNKVVLCFDRVFWDPSVNLFGHVGSTTASRGELFLFWNLYKAPILLALVAGEAAGIME
                     NISDDVIVGRCLAILKGIFGSSAVPQPKETVVSRWRADPWARGSYSYVAAGSSGNDYD
                     LMAQPITPGPSIPGAPQPIPRLFFAGEHTIRNYPATVHGALLSGLREAGRIADQFLGA
                     MYTLPRQATPGVPAQQSPSM"
     exon            481..646
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            647..706
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            707..840
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            841..919
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            920..1012
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1013..1119
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1120..1201
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1202..1296
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1297..1308
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1309..1451
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1452..1542
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1543..1677
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1678..1751
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1752..1863
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1864..1996
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            1997..2184
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            2185..2299
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            2300..2427
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            2428..2574
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     exon            2575..3085
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3064..3069
                     /regulatory_class="polyA_signal_sequence"
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /note="hexamer: AATAAA"
     polyA_site      3085
                     /gene="KDM1A"
                     /gene_synonym="AIMAH3; AOF2; BHC110; CPRF; KDM1; LSD1"
                     /note="major polyA site"
ORIGIN      
        1 ggcgcgtgcg tacgcgacgg cggttggcgg cgcgcgggca gcgtgaagcg aggcgaggca
       61 aggcttttcg gacccacgga gcgacagagc gagcggcccc tacggccgtc ggcggcccgg
      121 cggcccgaga tgttatctgg gaagaaggcg gcagccgcgg cggcggcggc tgcagcggca
      181 gcaaccggga cggaggctgg ccctgggaca gcaggcggct ccgagaacgg gtctgaggtg
      241 gccgcgcagc ccgcgggcct gtcgggccca gccgaggtcg ggccgggggc ggtgggggag
      301 cgcacacccc gcaagaaaga gcctccgcgg gcctcgcccc ccgggggcct ggcggaaccg
      361 ccggggtccg cagggcctca ggccggccct actgtcgtgc ctgggtctgc gacccccatg
      421 gaaactggaa tagcagagac tccggagggg cgtcggacca gccggcgcaa gcgggcgaag
      481 gtagagtaca gagagatgga tgaaagcttg gccaacctct cagaagatga gtattattca
      541 gaagaagaga gaaatgccaa agcagagaag gaaaagaagc ttcccccacc accccctcaa
      601 gccccacctg aggaagaaaa tgaaagtgag cctgaagaac catcggggca agcaggagga
      661 cttcaagacg acagttctgg agggtatgga gacggccaag catcaggtgt ggagggcgca
      721 gctttccaga gccgacttcc tcatgaccgg atgacttctc aagaagcagc ctgttttcca
      781 gatattatca gtggaccaca acagacccag aaggtttttc ttttcattag aaaccgcaca
      841 ctgcagttgt ggttggataa tccaaagatt cagctgacat ttgaggctac tctccaacaa
      901 ttagaagcac cttataacag tgatactgtg cttgtccacc gagttcacag ttatttagag
      961 cgtcatggtc ttatcaactt cggcatctat aagaggataa aacccctacc aactaaaaag
     1021 acaggaaagg taattattat aggctctggg gtctcaggct tggcagcagc tcgacagtta
     1081 caaagttttg gaatggatgt cacacttttg gaagccaggg atcgtgtggg tggacgagtt
     1141 gccacatttc gcaaaggaaa ctatgtagct gatcttggag ccatggtggt aacaggtctt
     1201 ggagggaatc ctatggctgt ggtcagcaaa caagtaaata tggaactggc caagatcaag
     1261 caaaaatgcc cactttatga agccaacgga caagctgaca ctgtcaaggt tcctaaagag
     1321 aaagatgaaa tggtagagca agagtttaac cggttgctag aagctacatc ttaccttagt
     1381 catcaactag acttcaatgt cctcaataat aagcctgtgt cccttggcca ggcattggaa
     1441 gttgtcattc agttacaaga gaagcatgtc aaagatgagc agattgaaca ttggaagaag
     1501 atagtgaaaa ctcaggaaga attgaaagaa cttcttaata agatggtaaa tttgaaagag
     1561 aaaattaaag aactccatca gcaatacaaa gaagcatctg aagtaaagcc acccagagat
     1621 attactgccg agttcttagt gaaaagcaaa cacagggatc tgaccgccct atgcaaggaa
     1681 tatgatgaat tagctgaaac acaaggaaag ctagaagaaa aacttcagga gttggaagcg
     1741 aatcccccaa gtgatgtata tctctcatca agagacagac aaatacttga ttggcatttt
     1801 gcaaatcttg aatttgctaa tgccacacct ctctcaactc tctcccttaa gcactgggat
     1861 caggatgatg actttgagtt cactggcagc cacctgacag taaggaatgg ctactcgtgt
     1921 gtgcctgtgg ctttagcaga aggcctagac attaaactga atacagcagt gcgacaggtt
     1981 cgctacacgg cttcaggatg tgaagtgata gctgtgaata cccgctccac gagtcaaacc
     2041 tttatttata aatgcgacgc agttctctgt acccttcccc tgggtgtgct gaagcagcag
     2101 ccaccagccg ttcagtttgt gccacctctc cctgagtgga aaacatctgc agtccaaagg
     2161 atgggatttg gcaaccttaa caaggtggtg ttgtgttttg atcgggtgtt ctgggatcca
     2221 agtgtcaatt tgttcgggca tgttggcagt acgactgcca gcaggggtga gctcttcctc
     2281 ttctggaacc tctataaagc tccaatactg ttggcactag tggcaggaga agctgctggt
     2341 atcatggaaa acataagtga cgatgtgatt gttggccgat gcctggccat tctcaaaggg
     2401 atttttggta gcagtgcagt acctcagccc aaagaaactg tggtgtctcg ttggcgtgct
     2461 gatccctggg ctcggggctc ttattcctat gttgctgcag gatcatctgg aaatgactat
     2521 gatttaatgg ctcagccaat cactcctggc ccctcgattc caggtgcccc acagccgatt
     2581 ccacgactct tctttgcggg agaacatacg atccgtaact acccagccac agtgcatggt
     2641 gctctgctga gtgggctgcg agaagcggga agaattgcag accagttttt gggggccatg
     2701 tatacgctgc ctcgccaggc cacaccaggt gttcctgcac agcagtcccc aagcatgtga
     2761 gacagatgca ttctaaggga agaggcccat gtgcctgttt ctgccatgta aggaaggctc
     2821 ttctagcaat actagatccc actgagaaaa tccaccctgg catctgggct cctgatcagc
     2881 tgatggagct cctgatttga caaaggagct tgcctccttt gaatgaccta gagcacaggg
     2941 aggaacttgt ccattagttt ggaattgtgt tcttcgtaaa gactgaggca agcaagtgct
     3001 gtgaaataac atcatcttag tcccttggtg tgtggggttt ttgttttttt tttatatttt
     3061 gagaataaaa cttcatataa aattg
//
