LOCUS       NM_004900               1590 bp    mRNA    linear   PRI 29-OCT-2024
DEFINITION  Homo sapiens apolipoprotein B mRNA editing enzyme catalytic subunit
            3B (APOBEC3B), transcript variant 1, mRNA.
ACCESSION   NM_004900
VERSION     NM_004900.5
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 1590)
  AUTHORS   Balasubramanian,V., Saravanan,R., Balamurugan,S.S.S., Rajendran,S.,
            Joseph,L.D., Dev,B., Srinivasan,B., Balunathan,N.,
            Shanmugasundaram,G., Gopisetty,G., Ganesan,K., Rayala,S.K. and
            Venkatraman,G.
  TITLE     Genetic alteration of mRNA editing enzyme APOBEC3B in the
            pathogenesis of ovarian endometriosis
  JOURNAL   Reprod Biomed Online 49 (5), 104111 (2024)
   PUBMED   39197402
  REMARK    GeneRIF: Genetic alteration of mRNA editing enzyme APOBEC3B in the
            pathogenesis of ovarian endometriosis.
REFERENCE   2  (bases 1 to 1590)
  AUTHORS   Kim,H., Cho,U., Hong,S.H., Park,H.S., Kim,I.H., An,H.J., Shim,B.Y.
            and Kang,J.H.
  TITLE     New insights into ATR inhibition in muscle invasive bladder cancer:
            The role of apolipoprotein B mRNA editing catalytic subunit 3B
  JOURNAL   Oncol Res 32 (6), 1021-1030 (2024)
   PUBMED   38827321
  REMARK    GeneRIF: New insights into ATR inhibition in muscle invasive
            bladder cancer: The role of apolipoprotein B mRNA editing catalytic
            subunit 3B.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1590)
  AUTHORS   Butt,Y., Sakhtemani,R., Mohamad-Ramshan,R., Lawrence,M.S. and
            Bhagwat,A.S.
  TITLE     Distinguishing preferences of human APOBEC3A and APOBEC3B for
            cytosines in hairpin loops, and reflection of these preferences in
            APOBEC-signature cancer genome mutations
  JOURNAL   Nat Commun 15 (1), 2369 (2024)
   PUBMED   38499553
  REMARK    GeneRIF: Distinguishing preferences of human APOBEC3A and APOBEC3B
            for cytosines in hairpin loops, and reflection of these preferences
            in APOBEC-signature cancer genome mutations.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1590)
  AUTHORS   Caswell,D.R., Gui,P., Mayekar,M.K., Law,E.K., Pich,O., Bailey,C.,
            Boumelha,J., Kerr,D.L., Blakely,C.M., Manabe,T., Martinez-Ruiz,C.,
            Bakker,B., De Dios Palomino Villcas,J., I Vokes,N., Dietzen,M.,
            Angelova,M., Gini,B., Tamaki,W., Allegakoen,P., Wu,W.,
            Humpton,T.J., Hill,W., Tomaschko,M., Lu,W.T., Haderk,F., Al
            Bakir,M., Nagano,A., Gimeno-Valiente,F., de Carne Trecesson,S.,
            Vendramin,R., Barbe,V., Mugabo,M., Weeden,C.E., Rowan,A.,
            McCoach,C.E., Almeida,B., Green,M., Gomez,C., Nanjo,S., Barbosa,D.,
            Moore,C., Przewrocka,J., Black,J.R.M., Gronroos,E.,
            Suarez-Bonnet,A., Priestnall,S.L., Zverev,C., Lighterness,S.,
            Cormack,J., Olivas,V., Cech,L., Andrews,T., Rule,B., Jiao,Y.,
            Zhang,X., Ashford,P., Durfee,C., Venkatesan,S., Temiz,N.A., Tan,L.,
            Larson,L.K., Argyris,P.P., Brown,W.L., Yu,E.A., Rotow,J.K.,
            Guha,U., Roper,N., Yu,J., Vogel,R.I., Thomas,N.J., Marra,A.,
            Selenica,P., Yu,H., Bakhoum,S.F., Chew,S.K., Reis-Filho,J.S.,
            Jamal-Hanjani,M., Vousden,K.H., McGranahan,N., Van Allen,E.M.,
            Kanu,N., Harris,R.S., Downward,J., Bivona,T.G. and Swanton,C.
  TITLE     The role of APOBEC3B in lung tumor evolution and targeted cancer
            therapy resistance
  JOURNAL   Nat Genet 56 (1), 60-73 (2024)
   PUBMED   38049664
  REMARK    GeneRIF: The role of APOBEC3B in lung tumor evolution and targeted
            cancer therapy resistance.
REFERENCE   5  (bases 1 to 1590)
  AUTHORS   Zhang,K., Chen,F., Shen,H.Y., Zhang,P.P., Gao,H., Peng,H., Luo,Y.S.
            and Cheng,Z.S.
  TITLE     Regulatory variants of APOBEC3 genes potentially associate with
            COVID-19 severity in populations with African ancestry
  JOURNAL   Sci Rep 13 (1), 22435 (2023)
   PUBMED   38105291
  REMARK    GeneRIF: Regulatory variants of APOBEC3 genes potentially associate
            with COVID-19 severity in populations with African ancestry.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1590)
  AUTHORS   Kidd,J.M., Newman,T.L., Tuzun,E., Kaul,R. and Eichler,E.E.
  TITLE     Population stratification of a common APOBEC gene deletion
            polymorphism
  JOURNAL   PLoS Genet 3 (4), e63 (2007)
   PUBMED   17447845
  REMARK    GeneRIF: detailed sequence and population genetic analysis of a
            29.5-kb common human deletion polymorphism that removes the
            APOBEC3B gene.
            GeneRIF: Observational study of genotype prevalence. (HuGE
            Navigator)
REFERENCE   7  (bases 1 to 1590)
  AUTHORS   Jarmuz,A., Chester,A., Bayliss,J., Gisbourne,J., Dunham,I.,
            Scott,J. and Navaratnam,N.
  TITLE     An anthropoid-specific locus of orphan C to U RNA-editing enzymes
            on chromosome 22
  JOURNAL   Genomics 79 (3), 285-296 (2002)
   PUBMED   11863358
REFERENCE   8  (bases 1 to 1590)
  AUTHORS   Suzuki,Y., Tsunoda,T., Sese,J., Taira,H., Mizushima-Sugano,J.,
            Hata,H., Ota,T., Isogai,T., Tanaka,T., Nakamura,Y., Suyama,A.,
            Sakaki,Y., Morishita,S., Okubo,K. and Sugano,S.
  TITLE     Identification and characterization of the potential promoter
            regions of 1031 kinds of human genes
  JOURNAL   Genome Res 11 (5), 677-684 (2001)
   PUBMED   11337467
REFERENCE   9  (bases 1 to 1590)
  AUTHORS   Dunham,I., Shimizu,N., Roe,B.A., Chissoe,S., Hunt,A.R.,
            Collins,J.E., Bruskiewich,R., Beare,D.M., Clamp,M., Smink,L.J.,
            Ainscough,R., Almeida,J.P., Babbage,A., Bagguley,C., Bailey,J.,
            Barlow,K., Bates,K.N., Beasley,O., Bird,C.P., Blakey,S.,
            Bridgeman,A.M., Buck,D., Burgess,J., Burrill,W.D., O'Brien,K.P. et
            al.
  TITLE     The DNA sequence of human chromosome 22
  JOURNAL   Nature 402 (6761), 489-495 (1999)
   PUBMED   10591208
  REMARK    Erratum:[Nature 2000 Apr 20;404(6780):904]
REFERENCE   10 (bases 1 to 1590)
  AUTHORS   Madsen,P., Anant,S., Rasmussen,H.H., Gromov,P., Vorum,H.,
            Dumanski,J.P., Tommerup,N., Collins,J.E., Wright,C.L., Dunham,I.,
            MacGinnitie,A.J., Davidson,N.O. and Celis,J.E.
  TITLE     Psoriasis upregulated phorbolin-1 shares structural but not
            functional similarity to the mRNA-editing protein apobec-1
  JOURNAL   J Invest Dermatol 113 (2), 162-169 (1999)
   PUBMED   10469298
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AL022318.2.
            
            On Nov 23, 2018 this sequence version replaced NM_004900.4.
            
            Summary: This gene is a member of the cytidine deaminase gene
            family. It is one of seven related genes or pseudogenes found in a
            cluster, thought to result from gene duplication, on chromosome 22.
            Members of the cluster encode proteins that are structurally and
            functionally related to the C to U RNA-editing cytidine deaminase
            APOBEC1. It is thought that the proteins may be RNA editing enzymes
            and have roles in growth or cell cycle control. A hybrid gene
            results from the deletion of approximately 29.5 kb of sequence
            between this gene, APOBEC3B, and the adjacent gene APOBEC3A. The
            breakpoints of the deletion are within the two genes, so the
            deletion allele is predicted to have the promoter and coding region
            of APOBEC3A, but the 3' UTR of APOBEC3B. Two transcript variants
            encoding different isoforms have been found for this gene.
            [provided by RefSeq, Jul 2012].
            
            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 :: SRR1163657.299085.1,
                                           SRR5189658.146530.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000333467.4/ ENSP00000327459.3
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-124               AL022318.2         98154-98277
            125-281             AL022318.2         99882-100038
            282-561             AL022318.2         101619-101898
            562-676             AL022318.2         102105-102219
            677-830             AL022318.2         105264-105417
            831-1125            AL022318.2         107139-107433
            1126-1241           AL022318.2         107841-107956
            1242-1590           AL022318.2         108238-108586
FEATURES             Location/Qualifiers
     source          1..1590
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="22"
                     /map="22q13.1"
     gene            1..1590
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /note="apolipoprotein B mRNA editing enzyme catalytic
                     subunit 3B"
                     /db_xref="GeneID:9582"
                     /db_xref="HGNC:HGNC:17352"
                     /db_xref="MIM:607110"
     exon            1..124
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /inference="alignment:Splign:2.1.0"
     CDS             108..1256
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /EC_number="3.5.4.38"
                     /note="isoform a is encoded by transcript variant 1;
                     phorbolin 3; phorbolin 2; probable DNA dC->dU-editing
                     enzyme APOBEC-3B; cytidine deaminase; phorbolin-2/3;
                     phorbolin-1-related protein; apolipoprotein B mRNA editing
                     enzyme, catalytic polypeptide-like 3B"
                     /codon_start=1
                     /product="DNA dC->dU-editing enzyme APOBEC-3B isoform a"
                     /protein_id="NP_004891.5"
                     /db_xref="CCDS:CCDS13982.1"
                     /db_xref="GeneID:9582"
                     /db_xref="HGNC:HGNC:17352"
                     /db_xref="MIM:607110"
                     /translation="MNPQIRNPMERMYRDTFYDNFENEPILYGRSYTWLCYEVKIKRG
                     RSNLLWDTGVFRGQVYFKPQYHAEMCFLSWFCGNQLPAYKCFQITWFVSWTPCPDCVA
                     KLAEFLSEHPNVTLTISAARLYYYWERDYRRALCRLSQAGARVTIMDYEEFAYCWENF
                     VYNEGQQFMPWYKFDENYAFLHRTLKEILRYLMDPDTFTFNFNNDPLVLRRRQTYLCY
                     EVERLDNGTWVLMDQHMGFLCNEAKNLLCGFYGRHAELRFLDLVPSLQLDPAQIYRVT
                     WFISWSPCFSWGCAGEVRAFLQENTHVRLRIFAARIYDYDPLYKEALQMLRDAGAQVS
                     IMTYDEFEYCWDTFVYRQGCPFQPWDGLEEHSQALSGRLRAILQNQGN"
     exon            125..281
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /inference="alignment:Splign:2.1.0"
     exon            282..561
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /inference="alignment:Splign:2.1.0"
     exon            562..676
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /inference="alignment:Splign:2.1.0"
     exon            677..830
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /inference="alignment:Splign:2.1.0"
     exon            831..1125
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /inference="alignment:Splign:2.1.0"
     exon            1126..1241
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /inference="alignment:Splign:2.1.0"
     exon            1242..1590
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1547..1552
                     /regulatory_class="polyA_signal_sequence"
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /note="hexamer: AATAAA"
     polyA_site      1590
                     /gene="APOBEC3B"
                     /gene_synonym="A3B; APOBEC1L; ARCD3; ARP4; bK150C2.2;
                     DJ742C19.2; PHRBNL"
                     /note="major polyA site"
ORIGIN      
        1 actttaagga gggctgtcca actgcaagga cgctgtaagc aggaagtgaa accacagagc
       61 ttcaaaaaaa gagcgggaca gggacaagcg tatctaagag gctgaacatg aatccacaga
      121 tcagaaatcc gatggagcgg atgtatcgag acacattcta cgacaacttt gaaaacgaac
      181 ccatcctcta tggtcggagc tacacttggc tgtgctatga agtgaaaata aagaggggcc
      241 gctcaaatct cctttgggac acaggggtct ttcgaggcca ggtgtatttc aagcctcagt
      301 accacgcaga aatgtgcttc ctctcttggt tctgtggcaa ccagctgcct gcttacaagt
      361 gtttccagat cacctggttt gtatcctgga ccccctgccc ggactgtgtg gcgaagctgg
      421 ccgaattcct gtctgagcac cccaatgtca ccctgaccat ctctgccgcc cgcctctact
      481 actactggga aagagattac cgaagggcgc tctgcaggct gagtcaggca ggagcccgcg
      541 tgacgatcat ggactatgaa gaatttgcat actgctggga aaactttgtg tacaatgaag
      601 gtcagcaatt catgccttgg tacaaattcg atgaaaatta tgcattcctg caccgcacgc
      661 taaaggagat tctcagatac ctgatggatc cagacacatt cactttcaac tttaataatg
      721 accctttggt ccttcgacgg cgccagacct acttgtgcta tgaggtggag cgcctggaca
      781 atggcacctg ggtcctgatg gaccagcaca tgggctttct atgcaacgag gctaagaatc
      841 ttctctgtgg cttttacggc cgccatgcgg agctgcgctt cttggacctg gttccttctt
      901 tgcagttgga cccggcccag atctacaggg tcacttggtt catctcctgg agcccctgct
      961 tctcctgggg ctgtgccggg gaagtgcgtg cgttccttca ggagaacaca cacgtgagac
     1021 tgcgcatctt cgctgcccgc atctatgatt acgaccccct atataaggag gcgctgcaaa
     1081 tgctgcggga tgctggggcc caagtctcca tcatgaccta cgatgagttt gagtactgct
     1141 gggacacctt tgtgtaccgc cagggatgtc ccttccagcc ctgggatgga ctagaggagc
     1201 acagccaagc cctgagtggg aggctgcggg ccattctcca gaatcaggga aactgaagga
     1261 tgggcctcag tctctaagga aggcagagac ctgggttgag cagcagaata aaagatcttc
     1321 ttccaagaaa tgcaaacaga ccgttcacca ccatctccag ctgctcacag acaccagcaa
     1381 agcaatgtgc tcctgatcaa gtagattttt taaaaatcag agtcaattaa ttttaattga
     1441 aaatttctct tatgttccaa gtgtacaaga gtaagattat gctcaatatt cccagaatag
     1501 ttttcaatgt attaatgaag tgattaattg gctccatatt tagactaata aaacattaag
     1561 aatcttccat aattgtttcc acaaacacta
//
