LOCUS       NM_001145778            2602 bp    mRNA    linear   ROD 24-APR-2024
DEFINITION  Mus musculus zinc finger with KRAB and SCAN domains 3 (Zkscan3),
            transcript variant 1, mRNA.
ACCESSION   NM_001145778
VERSION     NM_001145778.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 2602)
  AUTHORS   Zhang,T., Zhu,S. and Huang,G.W.
  TITLE     ALKBH5 suppresses autophagic flux via N6-methyladenosine
            demethylation of ZKSCAN3 mRNA in acute pancreatitis
  JOURNAL   World J Gastroenterol 30 (12), 1764-1776 (2024)
   PUBMED   38617741
  REMARK    GeneRIF: ALKBH5 suppresses autophagic flux via N6-methyladenosine
            demethylation of ZKSCAN3 mRNA in acute pancreatitis.
REFERENCE   2  (bases 1 to 2602)
  AUTHORS   Ouyang,X., Bakshi,S., Benavides,G.A., Sun,Z., Hernandez-Moreno,G.,
            Collins,H.E., Kane,M.S., Litovsky,S., Young,M.E., Chatham,J.C.,
            Darley-Usmar,V., Wende,A.R. and Zhang,J.
  TITLE     Cardiomyocyte ZKSCAN3 regulates remodeling following
            pressure-overload
  JOURNAL   Physiol Rep 11 (9), e15686 (2023)
   PUBMED   37144628
  REMARK    GeneRIF: Cardiomyocyte ZKSCAN3 regulates remodeling following
            pressure-overload.
REFERENCE   3  (bases 1 to 2602)
  AUTHORS   Li,X.M., Wen,J.H., Feng,Z.S., Wu,Y.S., Li,D.Y., Liang,S., Wu,D.,
            Wu,H.L., Li,S.M., Ye,Z.N., Yang,C., Sun,L., Tang,J.X. and Liu,H.F.
  TITLE     Effect of Lacking ZKSCAN3 on Autophagy, Lysosomal Biogenesis and
            Senescence
  JOURNAL   Int J Mol Sci 24 (9), 7786 (2023)
   PUBMED   37175493
  REMARK    GeneRIF: Effect of Lacking ZKSCAN3 on Autophagy, Lysosomal
            Biogenesis and Senescence.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2602)
  AUTHORS   Liu,Z., Li,X., Li,X., Li,Z., Chen,H., Gong,S., Zhang,M., Zhang,Y.,
            Li,Z., Yang,L. and Liu,H.
  TITLE     The kidney-expressed transcription factor ZKSCAN3 is dispensable
            for autophagy transcriptional regulation and AKI progression in
            mouse
  JOURNAL   Mutat Res 825, 111790 (2022)
   PUBMED   35841832
  REMARK    GeneRIF: The kidney-expressed transcription factor ZKSCAN3 is
            dispensable for autophagy transcriptional regulation and AKI
            progression in mouse.
REFERENCE   5  (bases 1 to 2602)
  AUTHORS   Wu,X., Ren,Y., Wen,Y., Lu,S., Li,H., Yu,H., Li,W. and Zou,F.
  TITLE     Deacetylation of ZKSCAN3 by SIRT1 induces autophagy and protects
            SN4741 cells against MPP+-induced oxidative stress
  JOURNAL   Free Radic Biol Med 181, 82-97 (2022)
   PUBMED   35124181
  REMARK    GeneRIF: Deacetylation of ZKSCAN3 by SIRT1 induces autophagy and
            protects SN4741 cells against MPP(+)-induced oxidative stress.
REFERENCE   6  (bases 1 to 2602)
  AUTHORS   Georgas,K., Rumballe,B., Valerius,M.T., Chiu,H.S.,
            Thiagarajan,R.D., Lesieur,E., Aronow,B.J., Brunskill,E.W.,
            Combes,A.N., Tang,D., Taylor,D., Grimmond,S.M., Potter,S.S.,
            McMahon,A.P. and Little,M.H.
  TITLE     Analysis of early nephron patterning reveals a role for distal RV
            proliferation in fusion to the ureteric tip via a cap
            mesenchyme-derived connecting segment
  JOURNAL   Dev Biol 332 (2), 273-286 (2009)
   PUBMED   19501082
REFERENCE   7  (bases 1 to 2602)
  AUTHORS   Yang,L., Zhang,L., Wu,Q. and Boyd,D.D.
  TITLE     Unbiased screening for transcriptional targets of ZKSCAN3
            identifies integrin beta 4 and vascular endothelial growth factor
            as downstream targets
  JOURNAL   J Biol Chem 283 (50), 35295-35304 (2008)
   PUBMED   18940803
  REMARK    GeneRIF: ZKSCAN3 regulates the expression of several genes favoring
            tumor progression including integrin beta 4 and VEGF
REFERENCE   8  (bases 1 to 2602)
  AUTHORS   Blackshaw,S., Harpavat,S., Trimarchi,J., Cai,L., Huang,H.,
            Kuo,W.P., Weber,G., Lee,K., Fraioli,R.E., Cho,S.H., Yung,R.,
            Asch,E., Ohno-Machado,L., Wong,W.H. and Cepko,C.L.
  TITLE     Genomic analysis of mouse retinal development
  JOURNAL   PLoS Biol 2 (9), E247 (2004)
   PUBMED   15226823
REFERENCE   9  (bases 1 to 2602)
  AUTHORS   Honer,C., Chen,P., Toth,M.J. and Schumacher,C.
  TITLE     Identification of SCAN dimerization domains in four gene families
  JOURNAL   Biochim Biophys Acta 1517 (3), 441-448 (2001)
   PUBMED   11342224
REFERENCE   10 (bases 1 to 2602)
  AUTHORS   Agata,Y., Matsuda,E. and Shimizu,A.
  TITLE     Rapid and efficient cloning of cDNAs encoding Kruppel-like zinc
            finger proteins by degenerate PCR
  JOURNAL   Gene 213 (1-2), 55-64 (1998)
   PUBMED   9630514
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BX001068.7, AK031286.1, AK028902.1 and AI132359.1.
            
            On Jan 19, 2019 this sequence version replaced NM_001145778.1.
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longer isoform (a). Variants 1 and 2
            both encode the same 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 :: AK031080.1, AK031286.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164137, SAMN01164138
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-46                BX001068.7         52560-52605
            47-165              AK031286.1         2-120
            166-166             BX001068.7         58819-58819
            167-1927            AK031286.1         122-1882
            1928-2599           AK028902.1         1915-2586
            2600-2602           AI132359.1         21-23               c
FEATURES             Location/Qualifiers
     source          1..2602
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="13"
                     /map="13 7.78 cM"
     gene            1..2602
                     /gene="Zkscan3"
                     /gene_synonym="2810435N07Rik; mszf35; Skz1; Zf47; Zfp-47;
                     Zfp306; Zfp307"
                     /note="zinc finger with KRAB and SCAN domains 3"
                     /db_xref="GeneID:72739"
                     /db_xref="MGI:MGI:1919989"
     exon            1..84
                     /gene="Zkscan3"
                     /gene_synonym="2810435N07Rik; mszf35; Skz1; Zf47; Zfp-47;
                     Zfp306; Zfp307"
                     /inference="alignment:Splign:2.1.0"
     exon            85..562
                     /gene="Zkscan3"
                     /gene_synonym="2810435N07Rik; mszf35; Skz1; Zf47; Zfp-47;
                     Zfp306; Zfp307"
                     /inference="alignment:Splign:2.1.0"
     CDS             146..1807
                     /gene="Zkscan3"
                     /gene_synonym="2810435N07Rik; mszf35; Skz1; Zf47; Zfp-47;
                     Zfp306; Zfp307"
                     /note="isoform a is encoded by transcript variant 1; zinc
                     finger protein 307; zinc finger protein 306;
                     SCAN-KRAB-zinc finger gene 1; zinc finger protein with
                     KRAB and SCAN domains 3; SCAN-KRAB-zinc finger protein;
                     zinc finger protein 47 homolog"
                     /codon_start=1
                     /product="zinc finger protein with KRAB and SCAN domains 3
                     isoform a"
                     /protein_id="NP_001139250.1"
                     /db_xref="CCDS:CCDS26274.1"
                     /db_xref="GeneID:72739"
                     /db_xref="MGI:MGI:1919989"
                     /translation="MARESRESTTLDSHSAEDQMELLVIKVEQEEASPLAEETSWLGS
                     PGPDRSRQRFRAFRYPEAAGPRQALSRLRELCRQWLRPDMHSKEQILELLVLEQFLTI
                     LPGELQAWVREQHPDSGEEVVALLEYLDRQLDDTPPQVPDDDDGQELLCSKAVLLTSA
                     QGSESSQMEPVEPLLKQESLGSLPSEVRVTHVGHCGEDGVTATRLTSELQGLLKMEDV
                     APVLSPRWTEQDSSQMNLYKDGMQEHSGSLVSLDQDMQTKVRDLPRAEEYRDQKPEQT
                     VCFLGEDTVPIPTGAEASEQEGKLQAAQKSATGTRRFYCRECGKSFAQSSGLSKHKRI
                     HTGLKPYECEECGKAFIGSSALIIHQRVHTGEKPYECEECGKAFSHSSDLIKHQRTHT
                     GEKPYECDDCGKTFTQSCSLLEHHRIHTGEKPYQCNMCPKAFRRSSHLLRHQRTHTGD
                     KDFFVPEPYWESQSRVESHWENIETPVSYQCNDCERSFSRITSLIEHQKVHTGEKPFE
                     CQTCGKGFTRPSYLIQHQRRHTGKKTSVTVTPAVHSEVGVQLSLN"
     exon            563..710
                     /gene="Zkscan3"
                     /gene_synonym="2810435N07Rik; mszf35; Skz1; Zf47; Zfp-47;
                     Zfp306; Zfp307"
                     /inference="alignment:Splign:2.1.0"
     exon            711..775
                     /gene="Zkscan3"
                     /gene_synonym="2810435N07Rik; mszf35; Skz1; Zf47; Zfp-47;
                     Zfp306; Zfp307"
                     /inference="alignment:Splign:2.1.0"
     exon            776..899
                     /gene="Zkscan3"
                     /gene_synonym="2810435N07Rik; mszf35; Skz1; Zf47; Zfp-47;
                     Zfp306; Zfp307"
                     /inference="alignment:Splign:2.1.0"
     exon            900..2602
                     /gene="Zkscan3"
                     /gene_synonym="2810435N07Rik; mszf35; Skz1; Zf47; Zfp-47;
                     Zfp306; Zfp307"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2576..2581
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Zkscan3"
                     /gene_synonym="2810435N07Rik; mszf35; Skz1; Zf47; Zfp-47;
                     Zfp306; Zfp307"
                     /note="hexamer: AATAAA"
     polyA_site      2596
                     /gene="Zkscan3"
                     /gene_synonym="2810435N07Rik; mszf35; Skz1; Zf47; Zfp-47;
                     Zfp306; Zfp307"
                     /note="major polyA site"
ORIGIN      
        1 ggaagtgctc tgtgccccgc cccccggggt cggactttcg acacttttgt gactgcgggg
       61 tgctacgagg tgctgcgttc gcggtagtct tttacagaaa tacaactcac agctacagtg
      121 aaacgggaga actgcttggt tcgggatggc tagagaatca agggaaagca caaccttgga
      181 ctcacactct gcagaggacc agatggagct actggtcata aaggtggaac aagaagaggc
      241 ctcccccttg gcagaggaga ccagttggct gggcagtcct gggcctgacc gctcccgcca
      301 gcgcttccgt gctttccgct acccagaggc agccgggccc cggcaggcgc tgagccggct
      361 ccgcgagctc tgcagacagt ggctgcggcc agacatgcac agcaaggagc agatcctgga
      421 gctgctggtg ctggagcagt tcctgaccat cctgccaggg gagctgcagg cctgggtgcg
      481 cgagcagcac cccgacagcg gggaggaggt ggtggcgctg ctggagtact tggacaggca
      541 gctggatgac acacctccac aggttccaga tgatgacgat gggcaggaac tcctttgctc
      601 caaggcagtg ctgttgacat cagctcaggg ctcagaaagt agccagatgg agcccgtgga
      661 gcctctgctg aagcaggagt ctttgggatc cctgccctca gaagtcagag tcactcatgt
      721 ggggcactgt ggagaagatg gagtgacagc tactaggctc acatcggaat tacaggggtt
      781 gctgaaaatg gaagatgtag ccccagtcct ttcccccaga tggacagagc aggattcatc
      841 tcagatgaac ctctacaaag atggaatgca ggagcactct ggcagcctgg tttccctgga
      901 tcaggacatg cagactaagg ttagggactt gcctcgagct gaagaataca gggaccaaaa
      961 gcctgagcag acagtgtgct tcctgggtga agacactgtc ccgattccta caggtgcaga
     1021 agccagtgag caggaaggca agttacaggc agcacagaag agtgccacag gaaccaggcg
     1081 gttctattgc cgtgaatgtg ggaagagctt tgctcagagt tcaggcctaa gtaaacacaa
     1141 aagaatccac actggattga aaccctatga atgtgaggag tgtggcaaag ccttcattgg
     1201 aagctcagct ctcattattc atcagagagt tcacactggt gagaagccat atgagtgtga
     1261 agaatgtggt aaggccttca gtcacagctc agatctcatc aaacaccaga gaacccacac
     1321 tggggaaaag ccctacgagt gtgatgactg tgggaaaacc ttcactcaga gctgcagcct
     1381 ccttgaacat cacagaattc acactgggga gaagccatac cagtgcaaca tgtgtcccaa
     1441 agcctttagg cgtagctcac atcttctgag acatcagagg acccatactg gggataaaga
     1501 tttttttgtt ccagaacctt actgggaaag tcagagtagg gtggaaagcc attgggaaaa
     1561 tattgaaact cctgtgtctt atcaatgtaa tgattgtgag agaagtttca gtaggattac
     1621 aagccttatt gaacaccaaa aagtacacac tggtgagaag ccctttgagt gccaaacctg
     1681 tggaaaaggc ttcacccgac cttcatacct tattcaacat cagagaagac acacggggaa
     1741 gaaaacttct gtcacagtga cccctgctgt acattccgaa gttggtgttc aactgtcatt
     1801 gaactgaagc cactctgtag ttcttaatga ctgcagaagt cataggctgg ggctctattt
     1861 gataatgtac attctcagat attaggaatc tggctaagac ttatcttcta cattctagaa
     1921 ggtgactagg aaaaaaaaat taatttcata gaagagttgt ctacaagagt cctcacccat
     1981 tggaactaaa tgggcttcct gactgtcaaa ttgccttccc ttgtcctgca cttcatatct
     2041 cttgagggaa tggttatgct ttgggggtgt tgctctgatc cttcattagg ctattgggcc
     2101 cttcacatgt ggtcagactt ggaactctta tgtcctgctt tgtgccttgt atacaggtgc
     2161 taatagacat ttattaaata tactggtgag atttcctaca tagctctaaa aacccattat
     2221 ctggaaattc tcaccaaaac catttgtata tctttttaaa aaaaatgatg ttttagattg
     2281 aatcaatgta gaactgcttt gtttttgttt tttgccaagt accccaactt ggcagggcag
     2341 aggtgaaggt gaggttactg tgctaaaatc ctttaatcct ttacctaatt taggaattct
     2401 gtgagagtgc cttaaacagc tttcttagca ttaaatcatt gtgaatgtgc cacccatgga
     2461 attccactaa tatttttttt cttgttaatt ttgttactct tgagagaaca aaaaaaaaaa
     2521 aaaaagaaag aaaaaaaaac ctttcctact catgtagtgt gaaaatgagt ttcagaataa
     2581 agtgatcaat gtctaaggct ca
//
