LOCUS       NM_001171136            4498 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens zinc finger BED-type containing 1 (ZBED1), transcript
            variant 1, mRNA.
ACCESSION   NM_001171136
VERSION     NM_001171136.2
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 4498)
  AUTHORS   Johansen,S., Traynor,S., Ebstrup,M.L., Terp,M.G., Pedersen,C.B.,
            Ditzel,H.J. and Gjerstorff,M.F.
  TITLE     ZBED1 Regulates Genes Important for Multiple Biological Processes
            of the Placenta
  JOURNAL   Genes (Basel) 13 (1), 133 (2022)
   PUBMED   35052473
  REMARK    GeneRIF: ZBED1 Regulates Genes Important for Multiple Biological
            Processes of the Placenta.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4498)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   3  (bases 1 to 4498)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   4  (bases 1 to 4498)
  AUTHORS   Hansen,S.V., Traynor,S., Ditzel,H.J. and Gjerstorff,M.F.
  TITLE     Human DREF/ZBED1 is a nuclear protein widely expressed in multiple
            cell types derived from all three primary germ layers
  JOURNAL   PLoS One 13 (10), e0205461 (2018)
   PUBMED   30304065
  REMARK    GeneRIF: ZBED1 is not a cell proliferation-associated factor such
            as Drosophila DREF, and our study adds to the cumulative
            understanding of the functions of ZBED1 in human cells and tissues.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4498)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Paulo,J.A., Cannon,J.R., Ting,L.,
            Baltier,K., Colby,G., Gebreab,F., Gygi,M.P., Parzen,H., Szpyt,J.,
            Tam,S., Zarraga,G., Pontano-Vaites,L., Swarup,S., White,A.E.,
            Schweppe,D.K., Rad,R., Erickson,B.K., Obar,R.A., Guruharsha,K.G.,
            Li,K., Artavanis-Tsakonas,S., Gygi,S.P. and Harper,J.W.
  TITLE     Architecture of the human interactome defines protein communities
            and disease networks
  JOURNAL   Nature 545 (7655), 505-509 (2017)
   PUBMED   28514442
REFERENCE   6  (bases 1 to 4498)
  AUTHORS   Yamashita,D., Komori,H., Higuchi,Y., Yamaguchi,T., Osumi,T. and
            Hirose,F.
  TITLE     Human DNA replication-related element binding factor (hDREF)
            self-association via hATC domain is necessary for its nuclear
            accumulation and DNA binding
  JOURNAL   J Biol Chem 282 (10), 7563-7575 (2007)
   PUBMED   17209048
  REMARK    GeneRIF: self-association of hDREF via the hATC domain is necessary
            for its nuclear accumulation and DNA binding.
REFERENCE   7  (bases 1 to 4498)
  AUTHORS   Yamashita,D., Sano,Y., Adachi,Y., Okamoto,Y., Osada,H.,
            Takahashi,T., Yamaguchi,T., Osumi,T. and Hirose,F.
  TITLE     hDREF regulates cell proliferation and expression of ribosomal
            protein genes
  JOURNAL   Mol Cell Biol 27 (6), 2003-2013 (2007)
   PUBMED   17220279
  REMARK    GeneRIF: hDREF is an important transcription factor for cell
            proliferation which plays roles in cell cycle-dependent regulation
            of a number of ribosomal protein genes
REFERENCE   8  (bases 1 to 4498)
  AUTHORS   Lim,J., Hao,T., Shaw,C., Patel,A.J., Szabo,G., Rual,J.F.,
            Fisk,C.J., Li,N., Smolyar,A., Hill,D.E., Barabasi,A.L., Vidal,M.
            and Zoghbi,H.Y.
  TITLE     A protein-protein interaction network for human inherited ataxias
            and disorders of Purkinje cell degeneration
  JOURNAL   Cell 125 (4), 801-814 (2006)
   PUBMED   16713569
REFERENCE   9  (bases 1 to 4498)
  AUTHORS   Ohshima,N., Takahashi,M. and Hirose,F.
  TITLE     Identification of a human homologue of the DREF transcription
            factor with a potential role in regulation of the histone H1 gene
  JOURNAL   J Biol Chem 278 (25), 22928-22938 (2003)
   PUBMED   12663651
  REMARK    GeneRIF: expression of hDREF/KIAA0785 may have a role in regulation
            of human genes related to cell proliferation
REFERENCE   10 (bases 1 to 4498)
  AUTHORS   Esposito,T., Gianfrancesco,F., Ciccodicola,A., Montanini,L.,
            Mumm,S., D'Urso,M. and Forabosco,A.
  TITLE     A novel pseudoautosomal human gene encodes a putative protein
            similar to Ac-like transposases
  JOURNAL   Hum Mol Genet 8 (1), 61-67 (1999)
   PUBMED   9887332
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC079176.15, AB018328.1,
            BC015030.1, DA625185.1 and BM980254.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_001171136.1.
            
            Summary: This gene is located in the pseudoautosomal region 1
            (PAR1) of X and Y chromosomes. It was earlier identified as a gene
            with similarity to Ac transposable elements, however, was found not
            to have transposase activity. Later studies show that this gene
            product is localized in the nucleus and functions as a
            transcription factor. It binds to DNA elements found in the
            promoter regions of several genes related to cell proliferation,
            such as histone H1, hence may have a role in regulating genes
            related to cell proliferation. Alternatively spliced transcript
            variants with different 5' untranslated region have been found for
            this gene. [provided by RefSeq, Jan 2010].
            
            Transcript Variant: This variant (1) represents the predominant
            transcript. Variants 1-3 encode the same protein.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript 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 :: HY070495.1, SRR1803611.267051.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN04284274 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000652001.1/ ENSP00000498725.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-9                 AC079176.15        85575-85583
            10-160              AB018328.1         1-151
            161-536             BC015030.1         230-605
            537-2443            AB018328.1         525-2431
            2444-2908           DA625185.1         94-558
            2909-4492           AC079176.15        98527-100110
            4493-4498           BM980254.1         40-45               c
FEATURES             Location/Qualifiers
     source          1..4498
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="X"
                     /chromosome="Y"
                     /map="X"
                     /map="Y"
     gene            1..4498
                     /gene="ZBED1"
                     /gene_synonym="ALTE; DREF; hDREF; TRAMP"
                     /note="zinc finger BED-type containing 1"
                     /db_xref="GeneID:9189"
                     /db_xref="HGNC:HGNC:447"
                     /db_xref="MIM:300178"
     exon            1..160
                     /gene="ZBED1"
                     /gene_synonym="ALTE; DREF; hDREF; TRAMP"
                     /inference="alignment:Splign:2.1.0"
     exon            161..4498
                     /gene="ZBED1"
                     /gene_synonym="ALTE; DREF; hDREF; TRAMP"
                     /inference="alignment:Splign:2.1.0"
     CDS             214..2298
                     /gene="ZBED1"
                     /gene_synonym="ALTE; DREF; hDREF; TRAMP"
                     /note="DNA replication-related element binding factor;
                     Ac-like transposable element; zinc finger BED
                     domain-containing protein 1; BED-type zinc finger
                     domain-containing protein 1; dREF homolog"
                     /codon_start=1
                     /product="E3 SUMO-protein ligase ZBED1"
                     /protein_id="NP_001164607.1"
                     /db_xref="CCDS:CCDS14118.1"
                     /db_xref="GeneID:9189"
                     /db_xref="HGNC:HGNC:447"
                     /db_xref="MIM:300178"
                     /translation="MENKSLESSQTDLKLVAHPRAKSKVWKYFGFDTNAEGCILQWKK
                     IYCRICMAQIAYSGNTSNLSYHLEKNHPEEFCEFVKSNTEQMREAFATAFSKLKPESS
                     QQPGQDALAVKAGHGYDSKKQQELTAAVLGLICEGLYPASIVDEPTFKVLLKTADPRY
                     ELPSRKYISTKAIPEKYGAVREVILKELAEATWCGISTDMWRSENQNRAYVTLAAHFL
                     GLGAPNCLSMGSRCLKTFEVPEENTAETITRVLYEVFIEWGISAKVFGATTNYGKDIV
                     KACSLLDVAVHMPCLGHTFNAGIQQAFQLPKLGALLSRCRKLVEYFQQSAVAMYMLYE
                     KQKQQNVAHCMLVSNRVSWWGSTLAMLQRLKEQQFVIAGVLVEDSNNHHLMLEASEWA
                     TIEGLVELLQPFKQVAEMLSASRYPTISMVKPLLHMLLNTTLNIKETDSKELSMAKEV
                     IAKELSKTYQETPEIDMFLNVATFLDPRYKRLPFLSAFERQQVENRVVEEAKGLLDKV
                     KDGGYRPAEDKIFPVPEEPPVKKLMRTSTPPPASVINNMLAEIFCQTGGVEDQEEWHA
                     QVVEELSNFKSQKVLGLNEDPLKWWSDRLALFPLLPKVLQKYWCVTATRVAPERLFGS
                     AANVVSAKRNRLAPAHVDEQVFLYENARSGAEAEPEDQDEGEWGLDQEQVFSLGDGVS
                     GGFFGIRDSSFL"
     regulatory      4480..4485
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ZBED1"
                     /gene_synonym="ALTE; DREF; hDREF; TRAMP"
                     /note="hexamer: AATAAA"
     polyA_site      4498
                     /gene="ZBED1"
                     /gene_synonym="ALTE; DREF; hDREF; TRAMP"
                     /note="major polyA site"
ORIGIN      
        1 gcagagtccc gcgggcggcg cggaagcggc ggcggcgcgg ccggggcagc catgtcgcca
       61 ttgtctgcgg cgcgggcggc cctgcgggtc tacgcggtag gcgccgcggt gatcctggcg
      121 cagctgctgc ggcgctgccg cgggggcttc ctggagccag caggtcccca cgcatgagca
      181 gccgtccagc aggcaggctc cggtggagaa gcaatggaga ataaaagcct ggagagctcc
      241 cagacagacc tgaagctggt ggcccacccc cgcgccaaga gcaaggtgtg gaagtatttc
      301 ggcttcgaca ccaacgccga gggatgcatc ctgcagtgga agaaaatcta ctgccgcatc
      361 tgcatggccc agatcgccta ctccggaaac acctccaacc tgtcctacca cctggagaag
      421 aaccaccccg aggaattctg cgagttcgtc aagagcaaca cggagcagat gcgtgaagcc
      481 ttcgccaccg ccttctccaa gctgaagccc gagtcgtccc agcagcccgg gcaggacgcg
      541 ctggccgtca aggccggcca cggctacgac agcaagaagc agcaggagct gacggccgcc
      601 gtgctgggcc tcatctgcga ggggctgtac ccagcctcca tcgtggacga gcccaccttc
      661 aaggtgctgc tgaagacggc cgacccccgg tatgagctgc ccagccggaa gtacatctct
      721 accaaggcca tccctgagaa gtacggggcc gtccgggagg tgatcctgaa ggagctggcc
      781 gaggccacct ggtgtggcat ctccaccgac atgtggagga gtgagaatca gaaccgcgcc
      841 tacgtcacgc tggccgccca cttcctgggc ctgggcgccc ccaactgcct gtccatgggc
      901 tcccgctgcc tgaagacctt cgaggtgccc gaagagaaca cggcggagac catcacgcga
      961 gtgctctatg aggtcttcat cgagtggggc atcagcgcca aggtcttcgg ggccaccacc
     1021 aactatggca aggacatcgt gaaggcgtgc tccctgctgg acgtcgcagt gcacatgccc
     1081 tgcctgggcc acaccttcaa tgccggcatc cagcaggcct tccagctccc gaagctgggg
     1141 gcgctgctgt cgcgctgccg caaactggtg gagtacttcc agcagtctgc cgtggccatg
     1201 tacatgctct atgagaagca gaagcagcag aacgtggccc actgcatgct ggtgagcaac
     1261 cgcgtctcct ggtgggggag cacgctggcc atgctgcagc gcctcaagga gcagcagttc
     1321 gtcatcgccg gggtcttggt ggaggacagc aacaaccacc acctcatgct ggaggccagc
     1381 gagtgggcca ccatcgaggg gctggtggag ctcctgcagc ccttcaagca ggtggccgag
     1441 atgctgtcgg cctccaggta ccccaccatc agcatggtga agccgctgct gcacatgctc
     1501 ctgaacacca cgctcaacat caaggagacc gactccaagg agctcagcat ggccaaggag
     1561 gtcatcgcca aggagctttc caagacctac caggagacgc ccgagatcga catgtttctc
     1621 aacgtggcca ccttcctgga cccccgctac aagaggctgc ccttcctctc cgccttcgag
     1681 cggcagcagg tggagaatcg cgtggtggaa gaggccaagg gcctgctgga caaggtcaaa
     1741 gacggcggct accggccggc tgaggacaag atcttcccgg tgcccgagga gcctcccgtc
     1801 aagaagctca tgcggacatc cacgccgccg cccgccagcg tcatcaacaa catgctggcc
     1861 gagatcttct gccagacagg cggcgtggag gaccaggaag agtggcatgc ccaggtggtg
     1921 gaggagctga gcaacttcaa gtcccagaag gtgcttggcc tcaacgaaga ccccctcaag
     1981 tggtggtcag accgcctggc cctcttcccc ctgctgccca aggtgctgca gaagtactgg
     2041 tgcgtgacgg ccacgcgcgt cgcccctgag cgtctcttcg gatccgccgc caacgtggtc
     2101 agcgccaaga ggaaccggct ggctcccgcg cacgtggacg agcaggtgtt tctgtatgag
     2161 aacgcccgga gtggggcaga ggcggaaccc gaggaccagg acgaggggga gtggggcctg
     2221 gaccaggagc aggtgttctc cttgggggat ggcgtcagcg gcggtttctt tggcattagg
     2281 gacagcagct tcctgtagcg aggaagcgtg ttgtcttaca agtcatcccc gcagcagccc
     2341 attggatgct ttgctgtaaa tacttacccg gtcagcttgg ttttgaacct cagagaccat
     2401 ccactgtctt tgacacctag aaggtggaaa aaggaaagag atttgagaag tgagagaggg
     2461 tcgggggcgg tggctcctgt ctataatcgc agcactttgg gaggccgagg tgggcagatc
     2521 agctgaggtc aggagatcga gaccagcctg gccaacatgg cgaaaccccg tctctactaa
     2581 aaatacaaaa attagccagg actgatggca tgtgcctgta atcccagctt ctggaggctg
     2641 aggccagaga atcgcttgaa cctgggaggt ggaggttgca gtaagctgag atcgctgcac
     2701 tccagcctgg gcgacaagag cgagactctc tcaaaaagaa aaaagaagac acaagagagg
     2761 tggctttgag tgggtttcct ttcctcccct attcccgggg cccggacgac ttctgcttgg
     2821 gaactgccaa cgcttctgct tgggaattgc gtgcagcaga gcctagagga gctgttcctt
     2881 ccttcacaga tacttaagac ctccaccatg tctgattcga gttctccctg ggagggttta
     2941 gaagaaacgc aggaacattc tgggtggcgt cgaaggagcc tttcccgatc atcatgtgtg
     3001 acttctgcga ggtccagatc actgaattca tgtttacatt ctcgtgcaag cagggacctc
     3061 ttgcttctga gaaatgggga agagaccttt tagccaaaat gcccttctta aaaagagaga
     3121 cctttttttt taatgttcgg ttaaaaatgt gacagatgag tacaaaaatg cagacactta
     3181 acaaaaagca aacagaaaaa aaagtgtgga atgtgttgta ttttcgacag gttgctgcca
     3241 gagagcctgc ttcctgctgc ctgccgaaat ttcactttgc ggagttggtc cttaaaactg
     3301 ggcggtggcc gggcgtggtg gctcacgctg aggtcaggag ttcgagacca gcctggccaa
     3361 ccaacatggt gaaacctcgt gtctactaaa aatacaagaa actagccaga tgcggtggca
     3421 cccgcctgta atcccagcta ctcgggaggc tgaggcggaa gattcgcttg agcccaggag
     3481 gtggaggttg cagtgagcca agactacgcc actgcactcc agcctggagg ccagagtgag
     3541 actccgtctc aaaacaaaac aaaagtgggt ggctcacggg tccggaggtt atgtcttcgg
     3601 tgtctcagcc ctaaaagtcc agttcccccg tgcggccagc ttttccacat aaggtgtttt
     3661 tgatttgatt accggaaagg actcttgatt cttctctttt aaactgaata ccatagggga
     3721 aatgaatttt aaaatattgc ccccggaggg gttttccgtg gctggattcc tgcgagttgc
     3781 tttcagtcat tcagggaaac agaaagacgt tttccaacat gtagaactgc tttttaactg
     3841 gaggaaaaat acttcaggag gcttagcata ttgcttggat tctacgtgca gcgggttctc
     3901 tgcctccgtg aagacaagct gggctgggga gaacggtgtc taggagggat gaccccactc
     3961 agctccaggc agtgttctgc cgagacccca agaactcggg gtgtcagagg gcaaaggaac
     4021 tacctgcctt tcacggctgc tgacttctca gggctgcaag cagcacagaa tgttatcctt
     4081 acgtcctgag ccggtttaag tctgtggaaa aggaagcacg ggagaaatcc acgtaacctt
     4141 tgctttcttt ttaagggaag cggttccgcc gtgaacttgg aaccctcagc tccgggtgtt
     4201 ctcggcagaa gggcagctgg aagggacaca gtggggcagg ctttggggtt gctccctgtt
     4261 ctgccccgag gccggggacg cagggcagcc cacgcctccg tgggctccat tctgtagcat
     4321 tgccagcgtt ctcttcacgt ctctaacaat ccttcgcttt tcctcactca cgtggaaatg
     4381 tgaactgtcc cggctctgtc ttcattttta tttttaagcc atcgttcccc tcctgaacgg
     4441 ttgcccctta tttaatgctg taaagttgga ctgttgttca ataaaccaga gcaatgca
//
