LOCUS       NM_001347492            1785 bp    mRNA    linear   ROD 03-JUN-2024
DEFINITION  Mus musculus alkB homolog 4, lysine demethylase (Alkbh4),
            transcript variant 1, mRNA.
ACCESSION   NM_001347492 XM_006504502
VERSION     NM_001347492.1
KEYWORDS    RefSeq; RefSeq Select.
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 1785)
  AUTHORS   Kweon,S.M., Chen,Y., Moon,E., Kvederaviciute,K., Klimasauskas,S.
            and Feldman,D.E.
  TITLE     An Adversarial DNA N6-Methyladenine-Sensor Network Preserves
            Polycomb Silencing
  JOURNAL   Mol Cell 74 (6), 1138-1147 (2019)
   PUBMED   30982744
  REMARK    GeneRIF: It has been shown that 6methyladenine (6 mA) deposition
            and removal are catalyzed by the Mettl4 methyltransferase and
            Alkbh4 dioxygenase, respectively, and that 6mA accumulation in
            genic elements corresponds with transcriptional silencing.
REFERENCE   2  (bases 1 to 1785)
  AUTHORS   Nilsen,A., Fusser,M., Greggains,G., Fedorcsak,P. and Klungland,A.
  TITLE     ALKBH4 depletion in mice leads to spermatogenic defects
  JOURNAL   PLoS One 9 (8), e105113 (2014)
   PUBMED   25153837
  REMARK    GeneRIF: ALKBH4 is essential for the development of spermatocytes
            during the prophase of meiosis.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1785)
  AUTHORS   Li,M.M., Nilsen,A., Shi,Y., Fusser,M., Ding,Y.H., Fu,Y., Liu,B.,
            Niu,Y., Wu,Y.S., Huang,C.M., Olofsson,M., Jin,K.X., Lv,Y., Xu,X.Z.,
            He,C., Dong,M.Q., Rendtlew Danielsen,J.M., Klungland,A. and
            Yang,Y.G.
  TITLE     ALKBH4-dependent demethylation of actin regulates actomyosin
            dynamics
  JOURNAL   Nat Commun 4, 1832 (2013)
   PUBMED   23673617
  REMARK    GeneRIF: ALKBH4-dependent actin demethylation regulates actomyosin
            function by promoting actin-non-muscle myosin II interaction.
REFERENCE   4  (bases 1 to 1785)
  AUTHORS   Lee,D.H., Jin,S.G., Cai,S., Chen,Y., Pfeifer,G.P. and O'Connor,T.R.
  TITLE     Repair of methylation damage in DNA and RNA by mammalian AlkB
            homologues
  JOURNAL   J Biol Chem 280 (47), 39448-39459 (2005)
   PUBMED   16174769
REFERENCE   5  (bases 1 to 1785)
  AUTHORS   Garcia-Frigola,C., Burgaya,F., Calbet,M., Lopez-Domenech,G., de
            Lecea,L. and Soriano,E.
  TITLE     A collection of cDNAs enriched in upper cortical layers of the
            embryonic mouse brain
  JOURNAL   Brain Res Mol Brain Res 122 (2), 133-150 (2004)
   PUBMED   15010206
REFERENCE   6  (bases 1 to 1785)
  AUTHORS   Phillips,R.L., Ernst,R.E., Brunk,B., Ivanova,N., Mahan,M.A.,
            Deanehan,J.K., Moore,K.A., Overton,G.C. and Lemischka,I.R.
  TITLE     The genetic program of hematopoietic stem cells
  JOURNAL   Science 288 (5471), 1635-1640 (2000)
   PUBMED   10834841
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC087420.4.
            
            On Nov 29, 2016 this sequence version replaced XM_006504502.3.
            
            Transcript Variant: This variant (1) uses an alternate in-frame
            splice junction compared to variant 3. The resulting isoform (1)
            has the same N- and C-termini but is shorter compared to isoform 3.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK008083.1, CX122842.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-150               AC087420.4         182323-182472
            151-348             AC087420.4         185516-185713
            349-1785            AC087420.4         186357-187793
FEATURES             Location/Qualifiers
     source          1..1785
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="5"
                     /map="5 75.82 cM"
     gene            1..1785
                     /gene="Alkbh4"
                     /gene_synonym="2010004B12Rik; Abj4"
                     /note="alkB homolog 4, lysine demethylase"
                     /db_xref="GeneID:72041"
                     /db_xref="MGI:MGI:1919291"
     exon            1..150
                     /gene="Alkbh4"
                     /gene_synonym="2010004B12Rik; Abj4"
                     /inference="alignment:Splign:2.1.0"
     CDS             34..936
                     /gene="Alkbh4"
                     /gene_synonym="2010004B12Rik; Abj4"
                     /EC_number="1.14.11.51"
                     /note="isoform 1 is encoded by transcript variant 1;
                     alkylated DNA repair protein alkB homolog 4; probable
                     alpha-ketoglutarate-dependent dioxygenase ABH4;
                     alpha-ketoglutarate-dependent dioxygenase alkB homolog 4;
                     alkB, alkylation repair homolog 4; lysine-specific
                     demethylase ALKBH4; DNA N6-methyl adenine demethylase
                     ALKBH4"
                     /codon_start=1
                     /product="alpha-ketoglutarate-dependent dioxygenase alkB
                     homolog 4 isoform 1"
                     /protein_id="NP_001334421.1"
                     /db_xref="CCDS:CCDS84973.1"
                     /db_xref="GeneID:72041"
                     /db_xref="MGI:MGI:1919291"
                     /translation="MAAAAEVSLLQECGCKGIRTCLICERQRHRDPPWQICLQKKCCF
                     LYCPDTGWAAGAEGSDLEGWAFPFPGVTLIQDFVTPEEEAEMVRLMDCDPWKLSQSGR
                     KKQDYGPKVNFRKQKLKMAGFQGLPGFSQKVVQRMGLYPGLEDFQPVEQCNLDYSPER
                     GSAIDPHLDDAWLWGERLVSLNLLSATVVSMSPEAPGSLLLCSAPSVRPDAFEDSLVA
                     PSRSVPCQEVEVAITVPRRSLLVLTGAARHQWTHAIHRRHIKARRVCATFRELSSEFL
                     PGGKQQELGQELLQAALSFQGRPV"
     exon            151..348
                     /gene="Alkbh4"
                     /gene_synonym="2010004B12Rik; Abj4"
                     /inference="alignment:Splign:2.1.0"
     exon            349..1785
                     /gene="Alkbh4"
                     /gene_synonym="2010004B12Rik; Abj4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1755..1760
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Alkbh4"
                     /gene_synonym="2010004B12Rik; Abj4"
                     /note="hexamer: AATAAA"
     regulatory      1760..1765
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Alkbh4"
                     /gene_synonym="2010004B12Rik; Abj4"
                     /note="hexamer: AAGAAA"
     polyA_site      1778
                     /gene="Alkbh4"
                     /gene_synonym="2010004B12Rik; Abj4"
                     /note="major polyA site"
     polyA_site      1785
                     /gene="Alkbh4"
                     /gene_synonym="2010004B12Rik; Abj4"
                     /note="major polyA site"
ORIGIN      
        1 cgcgcctgcg ctcttaactg atcggaggac gcgatggcgg cggcggctga agtttctctt
       61 ttgcaggagt gcggctgtaa gggcatccgg acctgtctta tctgcgagag acaacgccac
      121 agggacccgc cctggcagat ctgccttcag aaaaaatgct gtttcctcta ctgcccagac
      181 acaggctggg ccgcaggggc cgagggctct gacttggagg gttgggcatt ccccttccca
      241 ggagtgacac tgatacagga ctttgtgacc ccagaggaag aagctgagat ggtgcgtctg
      301 atggactgcg acccctggaa gctctcacag tctgggagga agaagcagga ctatggccct
      361 aaagttaatt ttcggaagca gaagctgaag atggcaggct tccagggtct ccctggcttt
      421 agccagaagg tagtccagag aatgggcctt tacccggggc tggaggactt ccagcctgtg
      481 gaacagtgca atctggacta cagccctgag cggggctccg ccatcgaccc ccacttggac
      541 gacgcctggc tgtggggcga gcggctggtg agcctcaacc tcctgtcagc cacagtggtg
      601 tccatgtctc cagaggcccc tggcagcctg cttctctgct cagccccctc cgtcagacct
      661 gatgcttttg aggacagcct tgtggctcct agcaggtctg tcccctgcca ggaggtggag
      721 gtggccatca cagtaccccg ccgctccttg ctggtgctta caggggccgc gaggcaccag
      781 tggacacacg ccatccaccg cagacacatc aaggcccgcc gtgtgtgcgc caccttcagg
      841 gagctgtcca gtgagttcct gcctggaggg aagcagcaag aactgggcca agaactgctg
      901 caggctgcac tctcgttcca ggggagaccg gtgtgatgct tcccagggcc caggagctgt
      961 cactggcctg gccaaaagct tggctccagc acaaccatcg gaggagctaa cactgaggtc
     1021 tccccacagc agtagattcg tggggttttt ttgagacaag gtctcatgta gcccaggcta
     1081 gcctccaatt aattgtgtag ctaaggatga ccttggactc ttgccttttc tacctcctct
     1141 tcccaagctc tggcttgatt attttgtttt gtttctcttt ttgggacagg gtctccggcc
     1201 tagactggcc tcagactctg tttccagcca aggatgactt tgaactccgg atcctcctgc
     1261 ctctacctct tgaatgctgg gattgccagc gtgcaccatc atatgcaatt tttgtctgtg
     1321 ctgggatggc agcaagcgtt ctgccagctg agctacccca cccccctagc ctgttggggg
     1381 tttttgagac aaggcctcac atgggctaga ctggcctgga actccccatc ctcctgcctc
     1441 agcctcccag tcgctgaggt gacagtgtac tggtgaggtt ttaggaggag ccatctgacc
     1501 cttgacgtca tgagcatcgt atgtcctgcc cggagctggt tctgctgggc ctgggctgcg
     1561 gccattcctc agctcactga gtgtcatatg tggagggatt gagtctttta gaacttcagt
     1621 acttgggacg agtaaggtgg ctcagtagct aaaggtgctg ccaccaagcc tgatgttcag
     1681 tctctgcaat ccacgtggta aaaggagtgt cccctgatct ccacacgcac atcacccatt
     1741 ttgataaaat tcataataaa agaaaaacct tggtctcatg tgaaa
//
