LOCUS       NM_001174157            4408 bp    mRNA    linear   PRI 06-APR-2024
DEFINITION  Homo sapiens zinc finger and AT-hook domain containing (ZFAT),
            transcript variant 4, mRNA.
ACCESSION   NM_001174157
VERSION     NM_001174157.2
KEYWORDS    RefSeq.
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 4408)
  AUTHORS   Ishikura,S., Yoshida,K., Tsunoda,T. and Shirasawa,S.
  TITLE     Death domain-associated protein DAXX regulates noncoding RNA
            transcription at the centromere through the transcription regulator
            ZFAT
  JOURNAL   J Biol Chem 298 (11), 102528 (2022)
   PUBMED   36162510
  REMARK    GeneRIF: Death domain-associated protein DAXX regulates noncoding
            RNA transcription at the centromere through the transcription
            regulator ZFAT.
REFERENCE   2  (bases 1 to 4408)
  AUTHORS   Ishikura,S., Yoshida,K., Hashimoto,S., Nakabayashi,K., Tsunoda,T.
            and Shirasawa,S.
  TITLE     CENP-B promotes the centromeric localization of ZFAT to control
            transcription of noncoding RNA
  JOURNAL   J Biol Chem 297 (4), 101213 (2021)
   PUBMED   34547289
  REMARK    GeneRIF: CENP-B promotes the centromeric localization of ZFAT to
            control transcription of noncoding RNA.
REFERENCE   3  (bases 1 to 4408)
  AUTHORS   Ishikura,S., Nakabayashi,K., Nagai,M., Tsunoda,T. and Shirasawa,S.
  TITLE     ZFAT binds to centromeres to control noncoding RNA transcription
            through the KAT2B-H4K8ac-BRD4 axis
  JOURNAL   Nucleic Acids Res 48 (19), 10848-10866 (2020)
   PUBMED   32997115
  REMARK    GeneRIF: ZFAT binds to centromeres to control noncoding RNA
            transcription through the KAT2B-H4K8ac-BRD4 axis.
REFERENCE   4  (bases 1 to 4408)
  AUTHORS   Abulaizi,A., Abula,A., Ababaikeli,G., Wan,X., Du,R. and Zhakeer,A.
  TITLE     Identification of pelvic organ prolapse risk susceptibility gene
            SNP locus in Xinjiang women
  JOURNAL   Int Urogynecol J 31 (1), 123-130 (2020)
   PUBMED   31270553
  REMARK    GeneRIF: Identification of pelvic organ prolapse risk
            susceptibility gene SNP locus in Xinjiang women.
REFERENCE   5  (bases 1 to 4408)
  AUTHORS   Doi,K., Tsunoda,T., Koyanagi,M., Tanaka,Y., Yamano,S., Fujikane,A.,
            Nishi,K., Ishikura,S. and Shirasawa,S.
  TITLE     Zfat Is Indispensable for the Development of Erythroid Cells in the
            Fetal Liver
  JOURNAL   Anticancer Res 39 (8), 4495-4502 (2019)
   PUBMED   31366551
  REMARK    GeneRIF: Zfat knockdown partially inhibited CD71(-/low)Ter119(-) to
            CD71(high)Ter119(-) transition of fetal liver erythroid progenitors
            with impairment in the elevation of CD71 expression.  Zfat plays a
            critical role for erythropoiesis in the fetal liver
REFERENCE   6  (bases 1 to 4408)
  AUTHORS   Zhu,X., Feng,T., Li,Y., Lu,Q. and Elston,R.C.
  TITLE     Detecting rare variants for complex traits using family and
            unrelated data
  JOURNAL   Genet Epidemiol 34 (2), 171-187 (2010)
   PUBMED   19847924
  REMARK    GeneRIF: Observational study and genome-wide association study of
            gene-disease association. (HuGE Navigator)
REFERENCE   7  (bases 1 to 4408)
  AUTHORS   Fujimoto,T., Doi,K., Koyanagi,M., Tsunoda,T., Takashima,Y.,
            Yoshida,Y., Sasazuki,T. and Shirasawa,S.
  TITLE     ZFAT is an antiapoptotic molecule and critical for cell survival in
            MOLT-4 cells
  JOURNAL   FEBS Lett 583 (3), 568-572 (2009)
   PUBMED   19162026
  REMARK    GeneRIF: ZFAT protein is a critical regulator involved in apoptosis
            and cell survival for immune-related cells
REFERENCE   8  (bases 1 to 4408)
  AUTHORS   Koyanagi,M., Nakabayashi,K., Fujimoto,T., Gu,N., Baba,I.,
            Takashima,Y., Doi,K., Harada,H., Kato,N., Sasazuki,T. and
            Shirasawa,S.
  TITLE     ZFAT expression in B and T lymphocytes and identification of
            ZFAT-regulated genes
  JOURNAL   Genomics 91 (5), 451-457 (2008)
   PUBMED   18329245
REFERENCE   9  (bases 1 to 4408)
  AUTHORS   Shirasawa,S., Harada,H., Furugaki,K., Akamizu,T., Ishikawa,N.,
            Ito,K., Ito,K., Tamai,H., Kuma,K., Kubota,S., Hiratani,H.,
            Tsuchiya,T., Baba,I., Ishikawa,M., Tanaka,M., Sakai,K., Aoki,M.,
            Yamamoto,K. and Sasazuki,T.
  TITLE     SNPs in the promoter of a B cell-specific antisense transcript,
            SAS-ZFAT, determine susceptibility to autoimmune thyroid disease
  JOURNAL   Hum Mol Genet 13 (19), 2221-2231 (2004)
   PUBMED   15294872
  REMARK    GeneRIF: Polymorphism, Single Nucleotide in ZFAT is associated with
            autoimmune thyroid disease
REFERENCE   10 (bases 1 to 4408)
  AUTHORS   Sakai,K., Shirasawa,S., Ishikawa,N., Ito,K., Tamai,H., Kuma,K.,
            Akamizu,T., Tanimura,M., Furugaki,K., Yamamoto,K. and Sasazuki,T.
  TITLE     Identification of susceptibility loci for autoimmune thyroid
            disease to 5q31-q33 and Hashimoto's thyroiditis to 8q23-q24 by
            multipoint affected sib-pair linkage analysis in Japanese
  JOURNAL   Hum Mol Genet 10 (13), 1379-1386 (2001)
   PUBMED   11440990
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DC333809.1, AC087045.7,
            BC143519.1, AC015599.5, AK300324.1 and BM685256.1.
            
            On May 31, 2019 this sequence version replaced NM_001174157.1.
            
            Summary: This gene encodes a protein that likely binds DNA and
            functions as a transcriptional regulator involved in apoptosis and
            cell survival. This gene resides in a susceptibility locus for
            autoimmune thyroid disease (AITD) on chromosome 8q24. Alternative
            splicing results in multiple transcript variants encoding distinct
            isoforms. [provided by RefSeq, Nov 2009].
            
            Transcript Variant: This variant (4) lacks an alternate in-frame
            exon in the central coding region, compared to variant 1, resulting
            in an isoform (3) that is shorter than isoform 1.
            
            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 :: BC143519.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-138               DC333809.1         140-277
            139-147             AC087045.7         56786-56794
            148-357             BC143519.1         80-289
            358-358             AC015599.5         161635-161635       c
            359-471             BC143519.1         291-403
            472-472             AC015599.5         141673-141673       c
            473-971             BC143519.1         405-903
            972-1239            AC015599.5         106530-106797       c
            1240-2390           BC143519.1         1172-2322
            2391-2391           AC015599.5         104570-104570       c
            2392-2474           BC143519.1         2324-2406
            2475-2475           AC015599.5         94406-94406         c
            2476-3803           BC143519.1         2408-3735
            3804-4171           AK300324.1         3927-4294
            4172-4408           BM685256.1         17-253              c
FEATURES             Location/Qualifiers
     source          1..4408
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="8"
                     /map="8q24.22"
     gene            1..4408
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /note="zinc finger and AT-hook domain containing"
                     /db_xref="GeneID:57623"
                     /db_xref="HGNC:HGNC:19899"
                     /db_xref="MIM:610931"
     exon            1..187
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     CDS             169..3714
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /note="isoform 3 is encoded by transcript variant 4; zinc
                     finger gene in autoimmune thyroid disease; zinc finger
                     protein 406; zinc finger protein ZFAT; zinc-finger gene in
                     AITD susceptibility region"
                     /codon_start=1
                     /product="zinc finger protein ZFAT isoform 3"
                     /protein_id="NP_001167628.1"
                     /db_xref="CCDS:CCDS55276.1"
                     /db_xref="GeneID:57623"
                     /db_xref="HGNC:HGNC:19899"
                     /db_xref="MIM:610931"
                     /translation="METRAAENTAIFMCKCCNLFSPNQSELLSHVSEKHMEEGVNVDE
                     IIIPLRPLSTPEPPNSSKTGDEFLVMKRKRGRPKGSTKKSSTEEELAENIVSPTEDSP
                     LAPEEGNSLPPSSLECSKCCRKFSNTRQLRKHICIIVLNLGEEEGEAGATKIVPVEAG
                     PPETGATNSETTSADLVPRRGYQEYAIQQTPYEQPMKSSRLGPTQLKIFTCEYCNKVF
                     KFKHSLQAHLRIHTNEKPYKCPQCSYASAIKANLNVHLRKHTGEKFACDYCSFTCLSK
                     GHLKVHIERVHKKIKQHCRFCKKKYSDVKNLIKHIRDAHDPQDKKVKEALDELCLMTR
                     EGKRQLLYDCHICERKFKNELDRDRHMLVHGDKWPFACELCGHGATKYQALELHVRKH
                     PFVYVCAVCRKKFVSSIRLRTHIKEVHGAAQEALVFTSSINQSFCLLEPGGDIQQEAL
                     GDQLQLVEEEFALQGVNALKEEACPGDTQLEEGRKEPEAPGEMPAPAVHLASPQAEST
                     ALPPCELETTVVSSSDLHSQEVVSDDFLLKNDTSSAEAHAAPEKPPDMQHRSSVQTQG
                     EVITLLLSKAQSAGSDQESHGAQSPLGEGQNMAVLSAGDPDPSRCLRSNPAEASDLLP
                     PVAGGGDTITHQPDSCKAAPEHRSGITAFMKVLNSLQKKQMNTSLCERIRKVYGDLEC
                     EYCGKLFWYQVHFDMHVRTHTREHLYYCSQCHYSSITKNCLKRHVIQKHSNILLKCPT
                     DGCDYSTPDKYKLQAHLKVHTALDKRSYSCPVCEKSFSEDRLIKSHIKTNHPEVSMST
                     ISEVLGRRVQLKGLIGKRAMKCPYCDFYFMKNGSDLQRHIWAHEGVKPFKCSLCEYAT
                     RSKSNLKAHMNRHSTEKTHLCDMCGKKFKSKGTLKSHKLLHTADGKQFKCTVCDYTAA
                     QKPQLLRHMEQHVSFKPFRCAHCHYSCNISGSLKRHYNRKHPNEEYANVGTGELAAEV
                     LIQQGGLKCPVCSFVYGTKWEFNRHLKNKHGLKVVEIDGDPKWETATEAPEEPSTQYL
                     HITEAEEDVQGTQAAVAALQDLRYTSESGDRLDPTAVNILQQIIELGAETHDATALAS
                     VVAMAPGTVTVVKQVTEEEPSSNHTVMIQETVQQASVELAEQHHLVVSSDDVEGIETV
                     TVYTQGGEASEFIVYVQEAMQPVEEQAVEQPAQEL"
     exon            188..364
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            365..616
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            617..767
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            768..2224
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            2225..2457
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            2458..2545
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            2546..2695
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            2696..2869
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            2870..2958
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            2959..3097
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            3098..3216
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            3217..3343
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            3344..3474
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     exon            3475..4408
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4386..4391
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /note="hexamer: AATAAA"
     polyA_site      4408
                     /gene="ZFAT"
                     /gene_synonym="AITD3; ZFAT1; ZNF406"
                     /note="major polyA site"
ORIGIN      
        1 atccgccatg ttggatgccg cagattcgcc ataacctcgc cggctctttt cttaaaaaaa
       61 taaaaataaa aagcgaagcg tcagcagggc gccccgcccc ctcggtcggc acgggagggg
      121 gcccggaaga gcccgaggct tttttttcct ccgcggtggg gcgttgccat ggagacgcgg
      181 gcggcagaaa acacggccat ctttatgtgt aaatgttgta acctcttctc accaaatcag
      241 tcggaactcc tctcccacgt ttcagagaag cacatggaag aaggggttaa tgttgatgag
      301 attattattc cccttaggcc tctgagtaca cctgaacccc ccaactcaag caaaaccgga
      361 gatgagtttt tggtcatgaa gaggaagaga ggcaggccta aggggtccac gaagaagtcc
      421 agcacagaag aggagctggc agaaaacatc gtgagtccga ctgaggacag cccgctggct
      481 ccggaggaag ggaacagcct gcctccaagc agcttggagt gtagcaagtg ctgtcggaag
      541 ttctccaaca cgcgccagct gcggaagcac atctgcatta tcgtgctgaa tttgggtgag
      601 gaggaaggag aagcaggtgc taccaagatt gtgccagtgg aggctgggcc ccctgaaaca
      661 ggagctacaa attctgagac cacttcagca gacctggtgc ctcggagagg ctaccaggaa
      721 tacgccattc agcagacacc ttatgagcaa ccaatgaagt caagcaggct aggtcccact
      781 cagctcaaaa tcttcacttg tgaatactgc aacaaggtct tcaagttcaa gcactcgctg
      841 caggcccacc tgaggatcca caccaatgaa aagccataca agtgccccca gtgcagctat
      901 gccagtgcca tcaaggccaa cctcaatgtg cacctgcgca agcacactgg agagaagttc
      961 gcctgcgact attgctcgtt cacctgcctg agcaagggcc acctcaaggt gcacatcgag
     1021 cgagtgcaca agaagatcaa gcagcactgc cgcttctgca agaagaagta ctctgacgtc
     1081 aagaacctca tcaagcacat ccgagacgcg catgacccac aggacaagaa ggtcaaagag
     1141 gccttggacg agctctgcct gatgacgagg gagggcaagc ggcagctgct ctatgactgc
     1201 cacatctgtg agcgcaagtt caagaacgag ctggaccgtg accgccatat gctggtccac
     1261 ggagacaagt ggccttttgc ctgtgagctc tgtggccatg gggccaccaa gtaccaggcg
     1321 ctggaactgc atgtcaggaa gcaccccttc gtgtacgtct gtgccgtctg ccgcaagaag
     1381 ttcgtcagct ccatcaggct gcgcacccac atcaaagagg tgcacggggc tgcccaggag
     1441 gccttggtct tcaccagttc catcaaccag agcttctgcc tcctggaacc tggtggggac
     1501 atccagcaag aagctctggg ggaccagcta cagctggtgg aagaggagtt tgccctccag
     1561 ggcgtgaatg cactcaagga agaggcctgt cctggggaca ctcagctgga ggagggccgg
     1621 aaggagccgg aggcccctgg ggaaatgcct gccccagctg tgcacctggc ctccccgcag
     1681 gccgaaagca cagccctgcc accctgtgag ctggaaacca ccgtggtctc ctcctcagac
     1741 ctgcattctc aagaggtggt ttcagatgat tttttgttga aaaatgatac ctcctccgca
     1801 gaggctcatg ctgctcctga gaagccccca gacatgcagc acagaagctc agtccagacg
     1861 caaggtgaag tgatcacact actgctgtcc aaggcccaga gtgctgggtc agatcaggaa
     1921 agccatggcg cccagagccc cctaggggaa gggcagaaca tggctgtgct ttcagctggt
     1981 gacccagatc ccagcaggtg tctcaggtca aacccagctg aggcctcaga cctcctccct
     2041 ccagtagctg gtggtgggga caccatcaca catcagcctg actcttgcaa agctgcccct
     2101 gagcaccggt caggcatcac cgctttcatg aaggtcctga acagtttaca gaagaagcaa
     2161 atgaacacca gcttgtgtga gcggatccgg aaggtttatg gagacctgga gtgtgaatac
     2221 tgtggcaaac ttttttggta ccaagtgcat tttgatatgc atgtccgcac ccacacccgg
     2281 gaacatctgt attattgctc tcagtgtcat tattcttcca tcaccaaaaa ctgccttaaa
     2341 cgccacgtaa ttcagaaaca cagtaacatc ttgctgaagt gtcccaccga tggctgtgac
     2401 tactcaactc cagataaata taagctacag gcacatctta aagttcacac agcactggac
     2461 aaaaggagtt attcttgtcc tgtttgtgaa aagtcttttt cagaggatcg attgataaag
     2521 tcacatatca agaccaacca tcctgaggtc tccatgagca ccatttctga ggttctcggg
     2581 aggagggttc agctgaaagg gctaattgga aagagagcca tgaaatgccc atattgtgac
     2641 ttttatttca tgaagaatgg ctcagacctt cagcgtcata tttgggctca tgaaggtgtg
     2701 aagcccttca agtgttcttt gtgtgagtat gcaactcgta gcaagagtaa cctcaaggct
     2761 catatgaatc gtcacagcac tgagaaaacc cacctatgtg acatgtgtgg caagaaattc
     2821 aaatcaaaag ggacactgaa aagtcacaaa ctccttcaca ctgcagatgg gaagcagttt
     2881 aagtgcacgg tgtgtgacta cacagcggcc cagaagccac agctgctgcg gcacatggaa
     2941 cagcatgtct ccttcaagcc tttccgctgt gcccattgcc attactcctg caacatatct
     3001 ggctctctga agcggcacta caacaggaag caccctaatg aggagtatgc caacgtgggc
     3061 accggggagc tggcagcgga ggtgctcatc cagcaaggtg gtttgaagtg tcctgtttgc
     3121 agctttgtat atggcaccaa atgggagttc aataggcact tgaagaacaa acatggcttg
     3181 aaggtggtgg aaattgatgg agaccccaag tgggagacag caacagaagc tcctgaggag
     3241 ccctccaccc agtatctcca catcacagag gccgaagaag acgttcaagg gacacaggca
     3301 gcggtggccg cgctccagga cctgagatac acctctgaga gtggcgaccg actggacccc
     3361 acggccgtga acatcctgca gcagatcatt gagctgggcg ccgagaccca tgacgccact
     3421 gcccttgcct cggtggttgc catggcacca gggacggtga ctgtggttaa gcaggtcacc
     3481 gaggaggagc ccagctccaa ccacacggtc atgatccagg agacggtcca gcaagcgtcc
     3541 gtggagcttg ccgagcagca ccacctggtg gtgtcctccg acgacgtgga gggcattgag
     3601 acggtgactg tctacacgca gggcggggag gcctcggagt tcatcgtcta cgtgcaggag
     3661 gccatgcagc ctgtggagga gcaggctgtg gagcagccgg cccaggaact ctagaggaca
     3721 tgtggcatcg gatggccaca gggcggggct gccaggctct gcaggcaccc agggtgggga
     3781 ggccaccctt cctgccctac ccgcagaatg gtgctctcct ttgccctccc tgcccagcag
     3841 cctgatagga ctctcctagt ccaacttggg gtgggcaagg cagtcagcat caccagcaat
     3901 accacaggac cctcacccca gcatagacac acaccccctg acccttacca tctgcttcct
     3961 gaaagacttc agtgtcagct cccctacaca caccccacac cttcacccct tgcttcaaga
     4021 ttcaaacaga gactcccagt ccccctcagc atcttccctg aatcacagcc ccagctcctt
     4081 gacccccatc taggtgccaa atgttcatct gcaaccgcta tgcagtctgg tgagagggag
     4141 acagccatca catagaaagt gaccgtacgg gtttttaatc actgctgggt ggggtggggg
     4201 tagggggatt gtcctggctt tgtcgacaaa gtcccacttc cccgagtatt aagggccctt
     4261 ggtatcaagt gaggtaaatt cacccatcac agggtctcgc cctaccatcc tggaattatt
     4321 tcacttttaa gataaatgca ctatttcact gttcgcctcc cattctaagg aggtgaggtg
     4381 gttggaataa aaacagttcc tgtctgaa
//
