LOCUS       NM_001402909            4289 bp    mRNA    linear   ROD 15-OCT-2024
DEFINITION  Mus musculus lysine (K)-specific demethylase 1B (Kdm1b), transcript
            variant 3, mRNA.
ACCESSION   NM_001402909 XM_006516914
VERSION     NM_001402909.1
KEYWORDS    RefSeq.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 4289)
  AUTHORS   Anvar,Z., Chakchouk,I., Sharif,M., Mahadevan,S., Nasiotis,E.T.,
            Su,L., Liu,Z., Wan,Y.W. and Van den Veyver,I.B.
  TITLE     Loss of the Maternal Effect Gene Nlrp2 Alters the Transcriptome of
            Ovulated Mouse Oocytes and Impacts Expression of Histone
            Demethylase KDM1B
  JOURNAL   Reprod Sci 30 (9), 2780-2793 (2023)
   PUBMED   36976514
  REMARK    GeneRIF: Loss of the Maternal Effect Gene Nlrp2 Alters the
            Transcriptome of Ovulated Mouse Oocytes and Impacts Expression of
            Histone Demethylase KDM1B.
REFERENCE   2  (bases 1 to 4289)
  AUTHORS   Liu,S., Tang,S., Yang,G. and Li,Q.
  TITLE     Lysine Demethylase 1B Promotes Tear Secretion Disorder in Sjogren's
            Syndrome by Regulating the PAX6/CLU Axis
  JOURNAL   J Mol Neurosci 73 (1), 28-38 (2023)
   PUBMED   36542318
  REMARK    GeneRIF: Lysine Demethylase 1B Promotes Tear Secretion Disorder in
            Sjogren's Syndrome by Regulating the PAX6/CLU Axis.
REFERENCE   3  (bases 1 to 4289)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4289)
  AUTHORS   Takase,R., Hino,S., Nagaoka,K., Anan,K., Kohrogi,K., Araki,H.,
            Hino,Y., Sakamoto,A., Nicholson,T.B., Chen,T. and Nakao,M.
  TITLE     Lysine-specific demethylase-2 is distinctively involved in brown
            and beige adipogenic differentiation
  JOURNAL   FASEB J 33 (4), 5300-5311 (2019)
   PUBMED   30681884
REFERENCE   5  (bases 1 to 4289)
  AUTHORS   Elsen,G.E., Bedogni,F., Hodge,R.D., Bammler,T.K., MacDonald,J.W.,
            Lindtner,S., Rubenstein,J.L.R. and Hevner,R.F.
  TITLE     The Epigenetic Factor Landscape of Developing Neocortex Is
            Regulated by Transcription Factors Pax6--> Tbr2--> Tbr1
  JOURNAL   Front Neurosci 12, 571 (2018)
   PUBMED   30186101
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4289)
  AUTHORS   Gupta,J., Kumar,S., Li,J., Krishna Murthy Karuturi,R. and Tikoo,K.
  TITLE     Histone H3 lysine 4 monomethylation (H3K4me1) and H3 lysine 9
            monomethylation (H3K9me1): distribution and their association in
            regulating gene expression under hyperglycaemic/hyperinsulinemic
            conditions in 3T3 cells
  JOURNAL   Biochimie 94 (12), 2656-2664 (2012)
   PUBMED   22951486
  REMARK    GeneRIF: Data indicate that Myst4, Jmjd2b, Aof1 genes are regulated
            by H3K9me under hyperinsulinemia/hyperglycemia.
REFERENCE   7  (bases 1 to 4289)
  AUTHORS   Dey,A., Seshasayee,D., Noubade,R., French,D.M., Liu,J.,
            Chaurushiya,M.S., Kirkpatrick,D.S., Pham,V.C., Lill,J.R.,
            Bakalarski,C.E., Wu,J., Phu,L., Katavolos,P., LaFave,L.M.,
            Abdel-Wahab,O., Modrusan,Z., Seshagiri,S., Dong,K., Lin,Z.,
            Balazs,M., Suriben,R., Newton,K., Hymowitz,S., Garcia-Manero,G.,
            Martin,F., Levine,R.L. and Dixit,V.M.
  TITLE     Loss of the tumor suppressor BAP1 causes myeloid transformation
  JOURNAL   Science 337 (6101), 1541-1546 (2012)
   PUBMED   22878500
REFERENCE   8  (bases 1 to 4289)
  AUTHORS   Yang,Z., Jiang,J., Stewart,M.D., Qi,S., Yamane,K., Li,J., Zhang,Y.
            and Wong,J.
  TITLE     AOF1 is a histone H3K4 demethylase possessing demethylase
            activity-independent repression function
  JOURNAL   Cell Res 20 (3), 276-287 (2010)
   PUBMED   20101264
  REMARK    GeneRIF: AOF1 is the second histone demethylase in the family of
            flavin-dependent amine oxidases and reveals a
            demethylase-independent repression function.
            Erratum:[Cell Res. 2010 Jul;20(7):858. Stewart, David M [corrected
            to Stewart, M David]]
REFERENCE   9  (bases 1 to 4289)
  AUTHORS   Ciccone,D.N., Su,H., Hevi,S., Gay,F., Lei,H., Bajko,J., Xu,G.,
            Li,E. and Chen,T.
  TITLE     KDM1B is a histone H3K4 demethylase required to establish maternal
            genomic imprints
  JOURNAL   Nature 461 (7262), 415-418 (2009)
   PUBMED   19727073
  REMARK    GeneRIF: oocytes from KDM1B-deficient females showed a substantial
            increase in H3K4 methylation and failed to set up the DNA
            methylation marks at four out of seven imprinted genes examined
REFERENCE   10 (bases 1 to 4289)
  AUTHORS   Karytinos,A., Forneris,F., Profumo,A., Ciossani,G., Battaglioli,E.,
            Binda,C. and Mattevi,A.
  TITLE     A novel mammalian flavin-dependent histone demethylase
  JOURNAL   J Biol Chem 284 (26), 17775-17782 (2009)
   PUBMED   19407342
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC096628.14 and AC154171.5.
            
            On Mar 23, 2022 this sequence version replaced XM_006516914.4.
            
            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 :: SRR9219382.93573.1,
                                           SRR17784644.661533.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-132               AC096628.14        117154-117285
            133-232             AC096628.14        121518-121617
            233-360             AC096628.14        122793-122920
            361-450             AC096628.14        124225-124314
            451-562             AC096628.14        125404-125515
            563-679             AC096628.14        127234-127350
            680-700             AC096628.14        131292-131312
            701-739             AC096628.14        132391-132429
            740-968             AC154171.5         171978-172206       c
            969-1153            AC154171.5         169817-170001       c
            1154-1330           AC154171.5         168729-168905       c
            1331-1405           AC154171.5         168314-168388       c
            1406-1543           AC154171.5         165377-165514       c
            1544-1715           AC154171.5         164324-164495       c
            1716-1843           AC154171.5         160940-161067       c
            1844-1975           AC154171.5         159117-159248       c
            1976-2050           AC154171.5         158531-158605       c
            2051-2167           AC154171.5         155460-155576       c
            2168-2293           AC154171.5         154566-154691       c
            2294-2410           AC154171.5         153660-153776       c
            2411-2563           AC154171.5         152371-152523       c
            2564-4289           AC154171.5         148359-150084       c
FEATURES             Location/Qualifiers
     source          1..4289
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="13"
                     /map="13 24.5 cM"
     gene            1..4289
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /note="lysine (K)-specific demethylase 1B"
                     /db_xref="GeneID:218214"
                     /db_xref="MGI:MGI:2145261"
     exon            1..132
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            133..232
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     CDS             146..2647
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /EC_number="1.14.99.66"
                     /note="isoform 3 is encoded by transcript variant 3; amine
                     oxidase, flavin containing 1; lysine-specific histone
                     demethylase 1B; lysine-specific histone demethylase 2;
                     flavin-containing amine oxidase domain-containing protein
                     1"
                     /codon_start=1
                     /product="lysine-specific histone demethylase 1B isoform
                     3"
                     /protein_id="NP_001389838.1"
                     /db_xref="GeneID:218214"
                     /db_xref="MGI:MGI:2145261"
                     /translation="MAASRGRSKKRSNLELSPDNLPLRSSGRQAKKKAVEIPDEDEDG
                     SSEKKYRKCEKAGCTAAYPVCFASASERCAKNGYTSRWYHLSCGEHFCNECFDHYYRS
                     HKDGYDKYSAWKRVWTSNGKTEPSPKAFMADQQLPYWVQCTKPECGKWRQLTKEIQLT
                     PHMARTYRCGMKPNTITKWDISELLPDTPDHCSFPEDLRVLEVSNHWWYPMLIQPPLL
                     KDSVAAPLLSAYYPDCVGMSPSCTSTHRATVTAATTTTGSASPGEMEPSKAAPSSLVL
                     GMNRYFQPFYQPNECGKALCVRPDVMELDELYEFPEYSRDPTMYLALRNLILALWYTN
                     CKEALTPQKCIPHIIVRGLVRIRCVQEVERILYFMTRKGLINTGVLTVAAGQHLLPKH
                     YHNKSVLVVGAGPAGLAAARQLHNFGMKVTVLEAKDRIGGRVWDDKSFKGVVVGRGPQ
                     IVNGCINNPVALMCEQLGISMRKLGERCDLIQEGGRITDPTVDKRMDFHFNALLDVVS
                     EWRKDKTLLQDVPLGEKIEEIYRAFVKESGIQFSELEGQVLQFHLSNLEYACGSSLHQ
                     VSARSWDHNEFFAQFAGDHTLLTPGYSTIIEKLAEGLDIRLKSPVQSIDYTGDEVQVT
                     TTDGMGHSAQKVLVTVPLAILQRGAIQFNPPLSEKKMKAINSLGAGIIEKIALQFPYR
                     FWDSKVQGADFFGHVPPSASQRGLFAVFYDMDSQQSVLMSVITGEAVASLRTMDDKQV
                     LQQCMGILRELFKEQEIPEPTKYFVTRWSTEPWIQMAYSFVKTFGSGEAYDIIAEEIQ
                     GTVFFAGEATNRHFPQTVTGAYLSGVREASKIAAF"
     exon            233..360
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            361..450
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            451..562
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            563..679
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            680..700
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            701..739
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            740..968
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            969..1153
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1154..1330
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1331..1405
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1406..1543
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1544..1715
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1716..1843
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1844..1975
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            1976..2050
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2051..2167
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2168..2293
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2294..2410
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2411..2563
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     exon            2564..4289
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4270..4275
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /note="hexamer: AATAAA"
     polyA_site      4289
                     /gene="Kdm1b"
                     /gene_synonym="4632428N09Rik; Aof1"
                     /note="major polyA site"
ORIGIN      
        1 actccgggtc acggcgtgat aggggcggaa gcggcggcgg ccgagctgct gcagctggca
       61 gtgcggatca ggccgtccgg tgcagcccgg tgcagcccag ggcagcattc gccccctggc
      121 cagcgctctg aggttttcca aagcaatggc cgcatctcga gggaggtcaa agaagagaag
      181 caatttggag ctttctcctg ataacctgcc tttgaggagc tctgggcggc aggcaaagaa
      241 gaaagcagta gagatcccgg atgaggatga agatggttcg tcggagaaga agtaccggaa
      301 atgtgaaaag gcaggctgta cggcggcgta ccctgtgtgc tttgcaagcg cttctgaaag
      361 atgtgccaaa aatggttaca cctcccgatg gtatcacctt tcctgtgggg aacacttctg
      421 caatgaatgc tttgaccact actacagaag ccacaaagat gggtatgaca aatacagtgc
      481 atggaaaaga gtgtggacca gcaacggcaa gacggagcca agccccaagg cgttcatggc
      541 agaccagcag ctgccctact gggtgcagtg cacaaaaccc gagtgtggaa agtggaggca
      601 gctgaccaag gagatccagc ttactccaca catggcgagg acttaccgct gtggcatgaa
      661 gccaaatact attaccaagt gggatatttc agaactgctg cctgacaccc ccgatcattg
      721 ttctttcccc gaggatctga gagtgctgga agtttccaac cactggtggt accccatgct
      781 catccagcct ccgttgctga aggacagtgt ggcagcaccg ctgctttctg cctactaccc
      841 cgactgcgtt ggcatgagcc cctcctgcac cagcacacat cgtgccaccg tcacagctgc
      901 taccacaacc accggcagtg ccagcccggg ggagatggag ccctccaagg cagccccctc
      961 ttcacttgtc ctaggcatga accggtactt ccagccgttc taccagccca acgagtgtgg
     1021 gaaagcgctg tgcgtgaggc cagacgtgat ggagctggat gagctctacg agttcccaga
     1081 gtattcgcgg gaccccacca tgtacctggc tttgagaaac ctcatcctcg cactgtggta
     1141 cacaaactgc aaagaagctc tcacccctca gaagtgcatt ccccacatca ttgtccgggg
     1201 ccttgtccgc atcagatgcg ttcaggaagt ggagaggatt ctttacttca tgacgaggaa
     1261 aggcctcatc aacacaggcg ttctcacggt ggcagccggc cagcatcttc ttcctaaaca
     1321 ctaccacaat aaatctgttc tggttgttgg ggctggtcca gcaggcttag cagctgctag
     1381 gcaactgcat aactttggga tgaaggtgac tgtcctggaa gccaaagacc ggattggagg
     1441 ccgagtatgg gatgacaagt cctttaaagg cgtggtagta ggaagaggac cccagattgt
     1501 caatggctgt attaataacc cagtagcact aatgtgtgag caacttggca tcagcatgcg
     1561 taagttggga gagagatgtg acttaattca ggaaggtgga cggataactg accccactgt
     1621 tgacaaacgc atggactttc attttaatgc tctcttggat gttgtctctg agtggaggaa
     1681 ggataagact ctgctccaag atgtcccttt aggagagaag atagaggaga tctaccgagc
     1741 ttttgtgaag gagtctggca tccagttcag cgagctggag ggacaggtgc tgcagttcca
     1801 cctgagtaac ctggagtatg cttgtggcag cagcctgcac caggtgtctg ctcgctcctg
     1861 ggatcacaat gaattctttg cccagtttgc tggtgaccat accctcctca caccaggcta
     1921 ctccactatc attgagaaac tggctgaagg actagacatt cgactcaaat ctccagtgca
     1981 aagtatagat tatactggag atgaagtgca ggttaccacg acagatggta tggggcattc
     2041 tgcacaaaag gtgttagtca ctgtgccatt ggccatacta cagagaggtg ccatccagtt
     2101 taatccacca ttgtcagaaa agaagatgaa agccatcaac agcttgggtg caggcatcat
     2161 tgaaaagatt gccttgcagt ttccatatag attttgggac agtaaagttc aaggagctga
     2221 cttttttggc catgttcctc ccagtgccag ccaacgaggc ctcttcgctg tattctatga
     2281 catggactct cagcagagtg tgctgatgtc ggtgatcaca ggggaggcag tggcgtccct
     2341 caggaccatg gatgacaagc aggtgctgca gcagtgcatg ggcatccttc gggagctgtt
     2401 caaggagcag gagatcccag aacccacaaa gtattttgtc acacggtgga gcacagagcc
     2461 atggatccag atggcatata gtttcgtgaa gacctttgga agtggcgagg cctatgatat
     2521 tattgctgaa gaaatacaag gaactgtctt ttttgctggt gaggcaacaa acaggcattt
     2581 cccacaaact gttactgggg catatttaag tggtgtacga gaagcaagca agattgcagc
     2641 cttttaaaaa gaacttgtat ggacctaacg ttctgtatcc caaatggaag tttgaagcca
     2701 agttaaactt cagttctgca agagagggga ctctgtgact ctatagtaaa attgaaatgt
     2761 ttctggtgat aggaaaatgt aaacccattt cactcttctg caaccactga ccctcaaaac
     2821 ccttccaggc acttatcttt tattgcattt ttccatctgt cctgtgggtt tcagaaggtg
     2881 acacagtaga tcatgaaggc cttggttctg gatgggatgc ccctcaggtt ggacattctg
     2941 gttggcagat tacttttcat ataatgtgaa accaggtaat ccagcaggcg tcactagcaa
     3001 acttgagaaa gccgtgtgct tttctgtgac aatttatcag tacctttacc aatgagcctt
     3061 aatattttta cacagttcca attttgggct ttccttaaaa tttacaattc ttttttgata
     3121 cggattttga cgtgatgctt ctaggctatt ttatactacc taaatttctt ttcattttca
     3181 aaacttagat tcgggcatat tttgatattt tagacctgta caacactcat cagcaacaca
     3241 agactcaacc tcttaacagt gaatacatat gtgtgcaaac atctcaatgg atacaggatg
     3301 ttttcaaact acaaaaccat ttttgagtgg gcagcacact tgaaatttag caaaaatctt
     3361 gttaaacttg aaagcccctc tttattttta aagttgaatt ttacagtgtc taatatttta
     3421 catagttgtg agtttcccat aggcaggtcc actggaaaac tgcacgaagt ctcaatcatc
     3481 ttagtacata cacaggacat tactttataa gccatatgtt aaaagtctga acgtggcaaa
     3541 acttactctt ccactgaaaa gactgtttaa taagcatggg ttttcagggt ctttgggatg
     3601 cctattctgc caagaaactt cagttgatag actagaaata tacttttgtt ttaaaaagtc
     3661 tttaaacaat tcttctttga attatattgg tctgctttta aaagggagct acaaaggact
     3721 ttacagacac tttttgaaat attaggtatt tctgaaattc aaatttagct taagaaaaga
     3781 tcttatacaa agaatgtaca gtgaagtgta ctttagacag tctagataca ctcttctccc
     3841 ctgtcaaagt acaatataaa gccaatggca acatatttaa aagttcatta ttcactgtac
     3901 ttagaggtta tttgttgaga ctcattggta ctgataaggg aagtattctg ctttcaagtg
     3961 taagtaatta aaatgtttag catgtgtgaa acggtaagtg cacaatgtta aatggccctt
     4021 ctaagtcagt tagtttctag gcacttgagc tttgtgtgct atttcaagta taagtgagta
     4081 attttctccc actgagtgac atacttagtt tcatatttgt tctaaaggaa ctatggtact
     4141 ttgagttatg ttctccaatc tctgagactt ttgttaatga gcacaagtat actttgattt
     4201 aataactaca tatcatgaat aattggttat gtaaaactgc ttaataagta gacttttgca
     4261 aatacccgta ataaatggtc atagcatca
//
