LOCUS       NM_001160305            6256 bp    mRNA    linear   PRI 07-APR-2024
DEFINITION  Homo sapiens SET domain containing 6, protein lysine
            methyltransferase (SETD6), transcript variant 1, mRNA.
ACCESSION   NM_001160305
VERSION     NM_001160305.4
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 6256)
  AUTHORS   Xu,J., Zhou,H., Luo,Z., Chen,J. and Liu,M.
  TITLE     Investigating the functional role of SETD6 in lung adenocarcinoma
  JOURNAL   BMC Cancer 23 (1), 18 (2023)
   PUBMED   36604642
  REMARK    GeneRIF: Investigating the functional role of SETD6 in lung
            adenocarcinoma.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 6256)
  AUTHORS   Jose,L., Androphy,E.J. and DeSmet,M.
  TITLE     SETD6 Regulates E2-Dependent Human Papillomavirus Transcription
  JOURNAL   J Virol 96 (22), e0129522 (2022)
   PUBMED   36300937
  REMARK    GeneRIF: SETD6 Regulates E2-Dependent Human Papillomavirus
            Transcription.
REFERENCE   3  (bases 1 to 6256)
  AUTHORS   Admoni-Elisha,L., Abaev-Schneiderman,E., Cohn,O., Shapira,G.,
            Shomron,N., Feldman,M. and Levy,D.
  TITLE     Structure-function conservation between the methyltransferases
            SETD3 and SETD6
  JOURNAL   Biochimie 200, 27-35 (2022)
   PUBMED   35550916
  REMARK    GeneRIF: Structure-function conservation between the
            methyltransferases SETD3 and SETD6.
REFERENCE   4  (bases 1 to 6256)
  AUTHORS   Admoni-Elisha,L., Elbaz,T., Chopra,A., Shapira,G., Bedford,M.T.,
            Fry,C.J., Shomron,N., Biggar,K., Feldman,M. and Levy,D.
  TITLE     TWIST1 methylation by SETD6 selectively antagonizes LINC-PINT
            expression in glioma
  JOURNAL   Nucleic Acids Res 50 (12), 6903-6918 (2022)
   PUBMED   35694846
  REMARK    GeneRIF: TWIST1 methylation by SETD6 selectively antagonizes
            LINC-PINT expression in glioma.
REFERENCE   5  (bases 1 to 6256)
  AUTHORS   Vershinin,Z., Feldman,M., Werner,T., Weil,L.E., Kublanovsky,M.,
            Abaev-Schneiderman,E., Sklarz,M., Lam,E.Y.N., Alasad,K., Picaud,S.,
            Rotblat,B., McAdam,R.A., Chalifa-Caspi,V., Bantscheff,M.,
            Chapman,T., Lewis,H.D., Filippakopoulos,P., Dawson,M.A., Grandi,P.,
            Prinjha,R.K. and Levy,D.
  TITLE     BRD4 methylation by the methyltransferase SETD6 regulates selective
            transcription to control mRNA translation
  JOURNAL   Sci Adv 7 (22) (2021)
   PUBMED   34039605
  REMARK    GeneRIF: BRD4 methylation by the methyltransferase SETD6 regulates
            selective transcription to control mRNA translation.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 6256)
  AUTHORS   Binda,O., Sevilla,A., LeRoy,G., Lemischka,I.R., Garcia,B.A. and
            Richard,S.
  TITLE     SETD6 monomethylates H2AZ on lysine 7 and is required for the
            maintenance of embryonic stem cell self-renewal
  JOURNAL   Epigenetics 8 (2), 177-183 (2013)
   PUBMED   23324626
  REMARK    GeneRIF: SETD6 monomethylates H2AZ on lysine 7.
REFERENCE   7  (bases 1 to 6256)
  AUTHORS   Levy,D., Liu,C.L., Yang,Z., Newman,A.M., Alizadeh,A.A., Utz,P.J.
            and Gozani,O.
  TITLE     A proteomic approach for the identification of novel lysine
            methyltransferase substrates
  JOURNAL   Epigenetics Chromatin 4, 19 (2011)
   PUBMED   22024134
  REMARK    Publication Status: Online-Only
REFERENCE   8  (bases 1 to 6256)
  AUTHORS   Chang,Y., Levy,D., Horton,J.R., Peng,J., Zhang,X., Gozani,O. and
            Cheng,X.
  TITLE     Structural basis of SETD6-mediated regulation of the NF-kB network
            via methyl-lysine signaling
  JOURNAL   Nucleic Acids Res 39 (15), 6380-6389 (2011)
   PUBMED   21515635
REFERENCE   9  (bases 1 to 6256)
  AUTHORS   Levy,D., Kuo,A.J., Chang,Y., Schaefer,U., Kitson,C., Cheung,P.,
            Espejo,A., Zee,B.M., Liu,C.L., Tangsombatvisit,S., Tennen,R.I.,
            Kuo,A.Y., Tanjing,S., Cheung,R., Chua,K.F., Utz,P.J., Shi,X.,
            Prinjha,R.K., Lee,K., Garcia,B.A., Bedford,M.T., Tarakhovsky,A.,
            Cheng,X. and Gozani,O.
  TITLE     Lysine methylation of the NF-kappaB subunit RelA by SETD6 couples
            activity of the histone methyltransferase GLP at chromatin to tonic
            repression of NF-kappaB signaling
  JOURNAL   Nat Immunol 12 (1), 29-36 (2011)
   PUBMED   21131967
  REMARK    GeneRIF: methylation of the NF-kappaB results in repression of
            NF-kappaB signaling
            GeneRIF: SETD6 mono-methylate Rela on K310 and negatively regulates
            RelA transcription activity
REFERENCE   10 (bases 1 to 6256)
  AUTHORS   Kim,Y.C., Wu,Q., Chen,J., Xuan,Z., Jung,Y.C., Zhang,M.Q.,
            Rowley,J.D. and Wang,S.M.
  TITLE     The transcriptome of human CD34+ hematopoietic stem-progenitor
            cells
  JOURNAL   Proc Natl Acad Sci U S A 106 (20), 8278-8283 (2009)
   PUBMED   19416867
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC009118.11.
            
            On Nov 30, 2019 this sequence version replaced NM_001160305.3.
            
            Summary: This gene encodes a methyltransferase that adds a methyl
            group to the histone H2AZ, which is involved in nuclear
            receptor-dependent transcription. The protein also interacts with
            several endogenous proteins which are involved in nuclear hormone
            receptor signaling. A related pseudogene is located on chromosome
            2. Alternative splicing results in multiple transcript variants.
            [provided by RefSeq, Jan 2016].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (a).
            
            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.
            
            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 :: AK290495.1, SRR14038191.2951388.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968540, SAMEA1970526
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000219315.9/ ENSP00000219315.5
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-48                AC009118.11        33007-33054         c
            49-355              AC009118.11        32474-32780         c
            356-497             AC009118.11        32228-32369         c
            498-692             AC009118.11        31899-32093         c
            693-813             AC009118.11        31643-31763         c
            814-994             AC009118.11        30340-30520         c
            995-1137            AC009118.11        30028-30170         c
            1138-6256           AC009118.11        24729-29847         c
FEATURES             Location/Qualifiers
     source          1..6256
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="16"
                     /map="16q21"
     gene            1..6256
                     /gene="SETD6"
                     /note="SET domain containing 6, protein lysine
                     methyltransferase"
                     /db_xref="GeneID:79918"
                     /db_xref="HGNC:HGNC:26116"
                     /db_xref="MIM:616424"
     exon            1..48
                     /gene="SETD6"
                     /inference="alignment:Splign:2.1.0"
     CDS             22..1443
                     /gene="SETD6"
                     /note="isoform a is encoded by transcript variant 1; SET
                     domain-containing protein 6; N-lysine methyltransferase
                     SETD6"
                     /codon_start=1
                     /product="N-lysine methyltransferase SETD6 isoform a"
                     /protein_id="NP_001153777.1"
                     /db_xref="CCDS:CCDS54013.1"
                     /db_xref="GeneID:79918"
                     /db_xref="HGNC:HGNC:26116"
                     /db_xref="MIM:616424"
                     /translation="MATQAKRPRVAGPVDGGDLDPVACFLSWCRRVGLELSPKVSERA
                     GGRRTRGGARAALTSPPAQVAVSRQGTVAGYGMVARESVQAGELLFVVPRAALLSQHT
                     CSIGGLLERERVALQSQSGWVPLLLALLHELQAPASRWRPYFALWPELGRLEHPMFWP
                     EEERRCLLQGTGVPEAVEKDLANIRSEYQSIVLPFMEAHPDLFSLRVRSLELYHQLVA
                     LVMAYSFQEPLEEEEDEKEPNSPVMVPAADILNHLANHNANLEYSANCLRMVATQPIP
                     KGHEIFNTYGQMANWQLIHMYGFVEPYPDNTDDTADIQMVTVREAALQGTKTEAERHL
                     VYERWDFLCKLEMVGEEGAFVIGREEVLTEEELTTTLKVLCMPAEEFRELKDQDGGGD
                     DKREEGSLTITNIPKLKASWRQLLQNSVLLTLQTYATDLKTDQGLLSNKEVYAKLSWR
                     EQQALQVRYGQKMILHQLLELTS"
     exon            49..355
                     /gene="SETD6"
                     /inference="alignment:Splign:2.1.0"
     exon            356..497
                     /gene="SETD6"
                     /inference="alignment:Splign:2.1.0"
     exon            498..692
                     /gene="SETD6"
                     /inference="alignment:Splign:2.1.0"
     exon            693..813
                     /gene="SETD6"
                     /inference="alignment:Splign:2.1.0"
     exon            814..994
                     /gene="SETD6"
                     /inference="alignment:Splign:2.1.0"
     exon            995..1137
                     /gene="SETD6"
                     /inference="alignment:Splign:2.1.0"
     exon            1138..6256
                     /gene="SETD6"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2918..2923
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SETD6"
                     /note="hexamer: ATTAAA"
     polyA_site      2941
                     /gene="SETD6"
                     /note="major polyA site"
     regulatory      6234..6239
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SETD6"
                     /note="hexamer: AATAAA"
     polyA_site      6256
                     /gene="SETD6"
                     /note="major polyA site"
ORIGIN      
        1 gaggaaacgc gctcttagac catggcgacc caggcgaagc gtccacgggt ggcggggccc
       61 gtggacggcg gcgacctgga tcctgtggcc tgcttcctga gctggtgccg gcgggtgggg
      121 ctggagctga gtcccaaggt gagcgagcga gccggcgggc ggaggacccg cggcggggcg
      181 cgggctgccc tgaccagccc tcctgctcag gtggcggtca gccggcaggg cacggtggcc
      241 ggctacggca tggtggcccg ggagagcgtg caggccggag agctgttgtt cgtggtgccg
      301 cgggccgcgc tcctgtcgca gcacacctgc tccatcggcg gcctgctgga gcgagagcga
      361 gttgcgctgc agagccagtc gggctgggtg ccactgctgc tggcgctgct ccacgagctg
      421 caggccccgg cctcacgctg gaggccctac tttgcgctct ggcccgagct gggccgcttg
      481 gagcacccga tgttctggcc agaggaggag cgccggtgcc tgctccaggg cacaggcgta
      541 cctgaggccg tggagaagga tttggccaac atccgcagcg agtaccagtc catcgtgctg
      601 cccttcatgg aagcccaccc cgatctcttc agcctcaggg ttcgctccct agaactctac
      661 caccagctgg tggcccttgt gatggcctat agctttcagg aaccactgga ggaagaagag
      721 gatgaaaagg agcccaactc ccccgtgatg gtgcctgctg cagacatact aaaccactta
      781 gccaatcaca acgccaatct agaatactct gcgaattgtc ttcggatggt agccactcag
      841 cccattccta aaggccatga gattttcaac acttatgggc aaatggctaa ctggcaactg
      901 attcatatgt acggttttgt tgaaccatat cctgacaaca cagatgacac agctgacatt
      961 cagatggtga cagttcgtga ggcagcatta cagggaacaa aaactgaagc tgaaaggcac
     1021 ctagtgtacg agcgctggga tttcctatgc aaactggaga tggtagggga agagggagcc
     1081 tttgtgatag ggagggagga ggtgctgact gaagaggagc tgaccaccac actaaaggta
     1141 ctgtgcatgc ctgctgagga gttcagagag cttaaagacc aggatggagg gggagatgat
     1201 aaaagggaag agggcagcct gacgatcaca aatattccca agctcaaagc atcgtggaga
     1261 cagctgcttc aaaacagtgt tctactgact ttgcagacct atgccacaga cttaaaaact
     1321 gaccaaggtt tactcagtaa taaggaagtc tatgcgaaac tcagctggag ggaacagcaa
     1381 gccttacagg ttcgctatgg tcagaagatg atcttacatc agttgttgga gctgacaagt
     1441 tagcagtttc cctgttccct gaaggaacag caataagaac tttattctaa gctaatactc
     1501 attgatgttt gaaaaagagg aaaatttgga tctttctttt gcttactaaa caccaagagg
     1561 aaaagtagca aagttggtgt gctaggatta actcaggtaa gggtgatgtg ttttaggatt
     1621 gagaacagca gacttgggaa tcactgctaa ttgttactta aagcatgtta cagatgtttt
     1681 gttctcagtt ttaaccaaag ccagtggaca tacggtagta ataagtaagt cttgttgtgt
     1741 ttcagcattt aataatagac tttggaggta gacccctggt ttaaatctaa gtctagtttg
     1801 aggaagtcac ttaaccttta ttgaaaagac tctggattta ataagctgtg taactggtac
     1861 tcgatagtta cccaaagttc agtctagatg gcacaaacca cctctcaggg aataaaccct
     1921 aagacatcac tcaaggagga cttcaattat ttaattttga actgttttgt cctctctggc
     1981 cataaaactt gacagtcatg aaaggtaagg caaattttaa gtgggttaag tttttaaata
     2041 cgtatctact cattttcttt aaaaaaaaaa aaaaaatacc tgggggaaaa ggatattaaa
     2101 actgggtatt ttaaactcag cttaaccaga taaacctgct ccagcatttg tccagtgttg
     2161 aaataaatag gaagaaaaat acaatttcct taaacatgcc agcttagtag taggaatgac
     2221 ctatcaatca atcaatcaat cattcagcaa gaagttagtt ggtggttccc catggcccca
     2281 aggtctgcag ggctggattg tccacttttc ctcctcacca ccagcactgg ctgctgctac
     2341 tgagaaaggc acagtggact catgtgtgtg tcatgacttt aatggttagc tacagtatgc
     2401 atacacatac aagaagtagg ggagctgaag cccaggaaaa ggctacaaaa tacaacacag
     2461 ggaccaatac atttgcaaaa cattcaaaat ccttataaaa ggggctgtat tggtcctttc
     2521 aactttgtca ttattcagct tagcctgtat ggccattcat tcagtggggt aatgggggag
     2581 aacaattaat taatgagatt tggttccctt tcctatattc ccactgtttt taagtttcag
     2641 gagaggattg ggggggtgag ggtaggggtg ggctttaggc ctggtctggt ttccctttat
     2701 ataaagagct gacccccatc tcaggcggct gaggtgtata atccccaaaa gaaataagat
     2761 ggtacaaatg cagtcagctt tggaatacgt ttgggtagag acaaaatgga aactcatggg
     2821 attccaatag tgagcccttc ccatgttcct ggacatatcc aattctagca catccacatt
     2881 tttaataact tagtgatttt caaggtcccc tgtccacatt aaaaaaataa gttacataat
     2941 attcaaactg gctttttgct attctttggg acaccaggaa tgtcagaaga catggagcta
     3001 tgccctcaga caagtgcatg gcatcagctg cctcttcatt acaaggtacc agtttatgta
     3061 cttgccttgg acacagcttg cacaaagcca agaagttcca gacaaaggtt ttctctttca
     3121 tgtatttaca caagttcaaa atgatattca cagcatcttc taaattttgg ccaagagtca
     3181 aaaaaatgca tttaaacttt ggaacgtgcc cacataagac aggaggctga tcccaacagt
     3241 agttggggca gatacccaca aaccaaaggg ctgggaaagt caggaagagc tgaaaggatt
     3301 cttcagtcag tttatgaact cggtgcagtg agacctctag actgacacgt acaacagaga
     3361 tgcagtttcg tctaactggc acctgtccct tccattactt gctgggcctg cttctgtccc
     3421 atgcagcact gtgcgaccga ctggaataac ctgaaggatg aagacagtta caaatctctg
     3481 attaaagagt aggcctaaca ataccttgca tctcattcag ctgacccaac ctagagacag
     3541 atggttttca gtctccagtc tcattcctag acaattaaaa attactttga actcactttt
     3601 cgatttctgg ggcacagtgt acaaattcat ggttccagaa cttaaacgct gggtttttaa
     3661 tcagctcaat gaaggtaata agaagacccc aaggatgtgg cctatttaca atcaaccgtt
     3721 ccaagagaac tctggaaaaa gggagaaaga gctagttaat gtatagaagc atacaaattc
     3781 atgattattc ttccattact ttttttctaa cttctccctg actattgaac cacatgcaaa
     3841 agttttcacc tttagtaaag acaggtggat taatatactc caaatagcac aggttggaat
     3901 acctgggttt gaaccctgct cttagccgta gaagactaag tatttatata aagtgcagat
     3961 aatggtatct acctcacagc tgttcagaat aaggggtgat gggggagagg aagccacata
     4021 aagcccagag tacatggcac acaaagttag tacaaaaagt agtaatttcc agaatgagct
     4081 cccaggccgg gcacagtggc tcatgcctgt aatccagcac tttgggaggc cgaggcaggt
     4141 ggatcacctg aggtcaggag ttcgagacca gcctggccaa catggtgaaa ccccatctct
     4201 gctacaaata taaaaattag tcagacatgg tggccacatg cctgtaatcc cagcagtcgg
     4261 acgctgaggc aggagaatcg cttgaaccca gtaggtggag gttgtggtga gccgagatgg
     4321 tgccactgca ctccagcctg ggagacagag tgagaccctg tctcaaataa acagataaat
     4381 taaataaata aataagctca ctctcaataa aaaggaaaca gaaaataaga attaagtatt
     4441 ctaacactgc aggctgggca cagtgactca cgcctgtaat cccagcactc tgggaggcca
     4501 agacgggtgg atcacgaggt cgggagttca agaccagcct ggccaagatg gtgaaacccc
     4561 gtctctacta aaaatacaaa aaattagccg gacgtggtgg caggtgcctg taatcccagc
     4621 tactcaggag gcgacaaagc gagactgtct caaaaaaaaa aaaaaaaaaa aaaaaaaaaa
     4681 agctaacatt gctagttcac atgtaaattg gtaaaatttt tccgaatgcc agtaagcatt
     4741 ggcttaactt tatatccttt cacgtaccaa ctgtacatga agcataacaa agattacaag
     4801 tccaaggaga cttactgcag ctttatataa acaaaatgga tcatcatcat ctaagcatcc
     4861 aataagatat taaattttag tacacaaatc aaaggaatac catatttagc accataggtg
     4921 actaattagg caaatgagca agttttaaga gtctggccca atttttaaag tgtgtgtgtg
     4981 tgtgtatcac aatctctcta atgctatatg tagtctaggc aatctggcaa cagattccta
     5041 actattgtta ggaaaatgca agtatgatcc tgttattgct actgctttca acccagaggt
     5101 aatgaggaaa agtccaagtt ccttaacata gacttcatag gcctgcatga tttaggactg
     5161 gttatcacca ccacctcaga gaaactcctg acctttaatc aaaatgtgcc ttgtggtaaa
     5221 ctacttttca tttaagccat gattgcgatt tataattccc tatcttgtga taaatgtcca
     5281 tcagaatgag tattaagagg gcaggaacca tccattttgc tcacaattgt atcccacatt
     5341 taacacatta ttggacatgt aaaagatttt cactgaaggc cgggtgcagt ggctcacgcc
     5401 tgtaatccca gcactttggg aggctgaggc gggtggatca cttgaggtca ggagttcaag
     5461 atcagcctgg ccaacatggt gaaaccccgt ctctactaaa atacaaaaat tagctgggcg
     5521 tggtggcagg cgcctgtaat cccagctact tgagaggcta aggcacgaga atcgcttgaa
     5581 cctgggaggc ggaggttgca gtgagccaag atggcgccac tgtactgcag actgagtgac
     5641 agagcaacac tccgtctcaa aaaaacaaaa aaaaaaccaa ccaaacggat tttcactgaa
     5701 cactgaaagc ataaagagga aaaaaaaaag atgaaaggga ggagatcctt ttgaagcatt
     5761 taaaaaataa gctgctcgct taccttgtga tctgttcttg gatggcttcc gtattggcct
     5821 ctgcaaaaag gtacagcatg gtgcaactga agtagtgagt gtggctattt gggtaccgga
     5881 gctgatttgc aattgcattc aaaaagagat agcgacctag aaattaagaa accttgactt
     5941 aggacttagt ctgaaaggcc aacatgggaa gacagttcta actggctagg gtttgggttt
     6001 ctgacagagg ctttcaaatt aatctttggt ttaaagcagt ggttcttggg accccaaaga
     6061 gttctcattt ctgtgcgttt tatttcagaa ttttccacat tagaaattag attttaaaaa
     6121 tattcatttt taaaaacaga cccactatgt gctaatgtaa gaaacatgaa ctattttctg
     6181 gtgacactca tcactaagtc tttctacatt ttgcagatct ctaagtcttg cttaataaaa
     6241 gacagctgga ttctca
//
