LOCUS       NM_139178               1544 bp    mRNA    linear   PRI 08-OCT-2024
DEFINITION  Homo sapiens alkB homolog 3, alpha-ketoglutarate dependent
            dioxygenase (ALKBH3), mRNA.
ACCESSION   NM_139178
VERSION     NM_139178.4
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 1544)
  AUTHORS   Chang,Y., Jin,H., Cui,Y., Yang,F., Chen,K., Kuang,W., Huo,C.,
            Xu,Z., Li,Y., Lin,A., Yang,B., Liu,W., Xie,S. and Zhou,T.
  TITLE     PUS7-dependent pseudouridylation of ALKBH3 mRNA inhibits gastric
            cancer progression
  JOURNAL   Clin Transl Med 14 (8), e1811 (2024)
   PUBMED   39175405
  REMARK    GeneRIF: PUS7-dependent pseudouridylation of ALKBH3 mRNA inhibits
            gastric cancer progression.
REFERENCE   2  (bases 1 to 1544)
  AUTHORS   Gu,X., Zhuang,A., Yu,J., Yang,L., Ge,S., Ruan,J., Jia,R., Fan,X.
            and Chai,P.
  TITLE     Histone lactylation-boosted ALKBH3 potentiates tumor progression
            and diminished promyelocytic leukemia protein nuclear condensates
            by m1A demethylation of SP100A
  JOURNAL   Nucleic Acids Res 52 (5), 2273-2289 (2024)
   PUBMED   38118002
  REMARK    GeneRIF: Histone lactylation-boosted ALKBH3 potentiates tumor
            progression and diminished promyelocytic leukemia protein nuclear
            condensates by m1A demethylation of SP100A.
REFERENCE   3  (bases 1 to 1544)
  AUTHORS   Zhang,L., Duan,H.C., Paduch,M., Hu,J., Zhang,C., Mu,Y., Lin,H.,
            He,C., Kossiakoff,A.A., Jia,G. and Zhang,L.
  TITLE     The Molecular Basis of Human ALKBH3 Mediated RNA N1
            -methyladenosine (m1 A) Demethylation
  JOURNAL   Angew Chem Int Ed Engl 63 (7), e202313900 (2024)
   PUBMED   38158383
  REMARK    GeneRIF: The Molecular Basis of Human ALKBH3 Mediated RNA N[1]
            -methyladenosine (m[1] A) Demethylation.
REFERENCE   4  (bases 1 to 1544)
  AUTHORS   Kanazhevskaya,L.Y., Gorbunov,A.A., Lukina,M.V., Smyshliaev,D.A.,
            Zhdanova,P.V., Lomzov,A.A. and Koval,V.V.
  TITLE     The Role of Key Amino Acids of the Human Fe(II)/2OG-Dependent
            Dioxygenase ALKBH3 in Structural Dynamics and Repair Activity
            toward Methylated DNA
  JOURNAL   Int J Mol Sci 25 (2), 1145 (2024)
   PUBMED   38256217
  REMARK    GeneRIF: The Role of Key Amino Acids of the Human
            Fe(II)/2OG-Dependent Dioxygenase ALKBH3 in Structural Dynamics and
            Repair Activity toward Methylated DNA.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1544)
  AUTHORS   Lu,Q., Wang,H., Lei,X., Ma,Q., Zhao,J., Sun,W., Guo,C., Huang,D.
            and Xu,Q.
  TITLE     LncRNA ALKBH3-AS1 enhances ALKBH3 mRNA stability to promote
            hepatocellular carcinoma cell proliferation and invasion
  JOURNAL   J Cell Mol Med 26 (20), 5292-5302 (2022)
   PUBMED   36098205
  REMARK    GeneRIF: LncRNA ALKBH3-AS1 enhances ALKBH3 mRNA stability to
            promote hepatocellular carcinoma cell proliferation and invasion.
REFERENCE   6  (bases 1 to 1544)
  AUTHORS   Liu,B.Q., Wu,Y.D., Li,P.H., Wei,J.X., Zhang,T. and Liu,R.L.
  TITLE     Prostate cancer antigen-1 as a potential novel marker for prostate
            cancer
  JOURNAL   Asian J Androl 9 (6), 821-826 (2007)
   PUBMED   17968469
  REMARK    GeneRIF: PCA-1 might be a novel diagnostic marker for prostate
            cancer, and increased PCA-1 expression might denote more aggressive
            variants of prostate cancer [PCA-1].
REFERENCE   7  (bases 1 to 1544)
  AUTHORS   Sundheim,O., Vagbo,C.B., Bjoras,M., Sousa,M.M., Talstad,V.,
            Aas,P.A., Drablos,F., Krokan,H.E., Tainer,J.A. and Slupphaug,G.
  TITLE     Human ABH3 structure and key residues for oxidative demethylation
            to reverse DNA/RNA damage
  JOURNAL   EMBO J 25 (14), 3389-3397 (2006)
   PUBMED   16858410
  REMARK    GeneRIF: Crystallographic study reveals beta-strand jelly-roll fold
            of hABH3 that coordinates a catalytically active iron center by a
            conserved His1-X-Asp/Glu-X(n)-His2 motif [ABH3]
REFERENCE   8  (bases 1 to 1544)
  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   9  (bases 1 to 1544)
  AUTHORS   Aas,P.A., Otterlei,M., Falnes,P.O., Vagbo,C.B., Skorpen,F.,
            Akbari,M., Sundheim,O., Bjoras,M., Slupphaug,G., Seeberg,E. and
            Krokan,H.E.
  TITLE     Human and bacterial oxidative demethylases repair alkylation damage
            in both RNA and DNA
  JOURNAL   Nature 421 (6925), 859-863 (2003)
   PUBMED   12594517
REFERENCE   10 (bases 1 to 1544)
  AUTHORS   Duncan,T., Trewick,S.C., Koivisto,P., Bates,P.A., Lindahl,T. and
            Sedgwick,B.
  TITLE     Reversal of DNA alkylation damage by two human dioxygenases
  JOURNAL   Proc Natl Acad Sci U S A 99 (26), 16660-16665 (2002)
   PUBMED   12486230
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC087521.10.
            
            On Nov 23, 2018 this sequence version replaced NM_139178.3.
            
            Summary: The Escherichia coli AlkB protein protects against the
            cytotoxicity of methylating agents by repair of the specific DNA
            lesions generated in single-stranded DNA. ALKBH2 (MIM 610602) and
            ALKBH3 are E. coli AlkB homologs that catalyze the removal of
            1-methyladenine and 3-methylcytosine (Duncan et al., 2002 [PubMed
            12486230]).[supplied by OMIM, Mar 2008].
            
            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 :: SRR1163655.511497.1,
                                           SRR1660803.22762.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000302708.9/ ENSP00000302232.4
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-349               AC087521.10        82548-82896         c
            350-498             AC087521.10        80996-81144         c
            499-602             AC087521.10        80539-80642         c
            603-637             AC087521.10        79710-79744         c
            638-685             AC087521.10        77074-77121         c
            686-789             AC087521.10        73899-74002         c
            790-878             AC087521.10        71598-71686         c
            879-1088            AC087521.10        62002-62211         c
            1089-1187           AC087521.10        44591-44689         c
            1188-1544           AC087521.10        43453-43809         c
FEATURES             Location/Qualifiers
     source          1..1544
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11p11.2"
     gene            1..1544
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /note="alkB homolog 3, alpha-ketoglutarate dependent
                     dioxygenase"
                     /db_xref="GeneID:221120"
                     /db_xref="HGNC:HGNC:30141"
                     /db_xref="MIM:610603"
     exon            1..349
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /inference="alignment:Splign:2.1.0"
     exon            350..498
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /inference="alignment:Splign:2.1.0"
     CDS             420..1280
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /EC_number="1.14.11.33"
                     /EC_number="1.14.11.54"
                     /note="prostate cancer antigen-1; alkylated DNA repair
                     protein alkB homolog 3; alkB, alkylation repair homolog 3;
                     alkB homolog 3, alpha-ketoglutaratedependent dioxygenase"
                     /codon_start=1
                     /product="alpha-ketoglutarate-dependent dioxygenase alkB
                     homolog 3"
                     /protein_id="NP_631917.1"
                     /db_xref="CCDS:CCDS7906.1"
                     /db_xref="GeneID:221120"
                     /db_xref="HGNC:HGNC:30141"
                     /db_xref="MIM:610603"
                     /translation="MEEKRRRARVQGAWAAPVKSQAIAQPATTAKSHLHQKPGQTWKN
                     KEHHLSDREFVFKEPQQVVRRAPEPRVIDREGVYEISLSPTGVSRVCLYPGFVDVKEA
                     DWILEQLCQDVPWKQRTGIREDITYQQPRLTAWYGELPYTYSRITMEPNPHWHPVLRT
                     LKNRIEENTGHTFNSLLCNLYRNEKDSVDWHSDDEPSLGRCPIIASLSFGATRTFEMR
                     KKPPPEENGDYTYVERVKIPLDHGTLLIMEGATQADWQHRVPKEYHSREPRVNLTFRT
                     VYPDPRGAPW"
     exon            499..602
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /inference="alignment:Splign:2.1.0"
     exon            603..637
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /inference="alignment:Splign:2.1.0"
     exon            638..685
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /inference="alignment:Splign:2.1.0"
     exon            686..789
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /inference="alignment:Splign:2.1.0"
     exon            790..878
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /inference="alignment:Splign:2.1.0"
     exon            879..1088
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /inference="alignment:Splign:2.1.0"
     exon            1089..1187
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /inference="alignment:Splign:2.1.0"
     exon            1188..1544
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1516..1521
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /note="hexamer: ATTAAA"
     polyA_site      1544
                     /gene="ALKBH3"
                     /gene_synonym="ABH3; DEPC-1; DEPC1; hABH3; PCA1"
                     /note="major polyA site"
ORIGIN      
        1 actcttaagg ttccgatcac agactgcgga gtgggtcagg ggctgcgagg gctgccccaa
       61 gtcctaccgg gtttgcacgg gcgcgcccgg ctccgcccgc aagtgcgcct tcctgactta
      121 ctgctgggtg cgcggggctg ggggtgcgag taccacccct gaagtctctt cctgggcgac
      181 ctccggggcc tcattctagg cctccttaaa gagaaggatc taaattagga aaaggaagtg
      241 cccttatcca cgaccaagct cttccacctg cggagctcgc ttagtctgca cctcaaccgt
      301 gcggaaagtg actgccctgt ttactgagga aaaactgggg ctcagaaaga taccatggag
      361 tagtttgaaa caggaacaaa atcttctgaa agctcggagc agaagccttt ttggtcaaca
      421 tggaggaaaa aagacggcga gcccgagttc agggagcctg ggctgcccct gttaaaagcc
      481 aggccattgc tcagccagct accactgcta agagccatct ccaccagaag cctggccaga
      541 cctggaagaa caaagagcat catctctctg acagagagtt tgtgttcaaa gaacctcagc
      601 aggtagtacg tagagctcct gagccacgag tgattgacag agagggtgtg tatgaaatca
      661 gcctgtcacc cacaggtgta tctagggtct gtttgtatcc tggctttgtt gacgtgaaag
      721 aagctgactg gatattggaa cagctttgtc aagatgttcc ctggaaacag aggactggca
      781 tcagagagga tataacttat cagcaaccaa gacttacagc atggtatgga gaacttcctt
      841 acacttattc aagaatcact atggaaccaa atcctcactg gcaccctgtg ctgcgcacac
      901 taaagaaccg cattgaagag aacactggcc acaccttcaa ctccttactc tgcaatcttt
      961 atcgcaatga gaaggacagc gtggactggc acagtgatga tgaaccctca ctagggaggt
     1021 gccccattat tgcttcacta agttttggtg ccacacgcac atttgagatg agaaagaagc
     1081 caccaccaga agagaatgga gactacacat atgtggaaag agtgaagata cccttggatc
     1141 atgggacctt gttaatcatg gaaggagcga cacaagctga ctggcagcat cgagtgccca
     1201 aagaatacca ctctagagaa ccgagagtga acctgacctt tcggacagtc tatccagacc
     1261 ctcgaggggc accctggtga cgtcagagct ttgagagaga agcttcactg aaacggagca
     1321 aaccttccac tgagaagcca cttcaagagg ctggtgctgc tagatctcat gatgtggctg
     1381 ttgggaagat ggtggggttt gtttgccagc ttggagtcct attaaatgaa agccagcaac
     1441 tcatgttggt aataggtcta ctgtgggaac agttatccct aaccacagct caaaatcgct
     1501 atcatcttta ggcaaattaa aatctatgtg gcagtgctca tgga
//
