LOCUS       NM_001106478            4787 bp    mRNA    linear   ROD 24-JUN-2024
DEFINITION  Rattus norvegicus helicase-like transcription factor (Hltf), mRNA.
ACCESSION   NM_001106478 XM_001061239 XM_215728
VERSION     NM_001106478.1
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 4787)
  AUTHORS   Achar,Y.J., Balogh,D., Neculai,D., Juhasz,S., Morocz,M., Gali,H.,
            Dhe-Paganon,S., Venclovas,C. and Haracska,L.
  TITLE     Human HLTF mediates postreplication repair by its HIRAN
            domain-dependent replication fork remodelling
  JOURNAL   Nucleic Acids Res 43 (21), 10277-10291 (2015)
   PUBMED   26350214
REFERENCE   2  (bases 1 to 4787)
  AUTHORS   Zeman,M.K., Lin,J.R., Freire,R. and Cimprich,K.A.
  TITLE     DNA damage-specific deubiquitination regulates Rad18 functions to
            suppress mutagenesis
  JOURNAL   J Cell Biol 206 (2), 183-197 (2014)
   PUBMED   25023518
REFERENCE   3  (bases 1 to 4787)
  AUTHORS   Castello,A., Fischer,B., Eichelbaum,K., Horos,R., Beckmann,B.M.,
            Strein,C., Davey,N.E., Humphreys,D.T., Preiss,T., Steinmetz,L.M.,
            Krijgsveld,J. and Hentze,M.W.
  TITLE     Insights into RNA biology from an atlas of mammalian mRNA-binding
            proteins
  JOURNAL   Cell 149 (6), 1393-1406 (2012)
   PUBMED   22658674
REFERENCE   4  (bases 1 to 4787)
  AUTHORS   Guillaumond,F., Boyer,B., Becquet,D., Guillen,S., Kuhn,L.,
            Garin,J., Belghazi,M., Bosler,O., Franc,J.L. and
            Francois-Bellan,A.M.
  TITLE     Chromatin remodeling as a mechanism for circadian prolactin
            transcription: rhythmic NONO and SFPQ recruitment to HLTF
  JOURNAL   FASEB J 25 (8), 2740-2756 (2011)
   PUBMED   21507896
  REMARK    GeneRIF: Circadian Prl transcription depended on an interaction
            between the pituitary-specific transcription factor, PIT-1, and the
            helicase-like transcription factor (HLTF), a SWI/SNF chromatin
            remodeler.
REFERENCE   5  (bases 1 to 4787)
  AUTHORS   Lin,J.R., Zeman,M.K., Chen,J.Y., Yee,M.C. and Cimprich,K.A.
  TITLE     SHPRH and HLTF act in a damage-specific manner to coordinate
            different forms of postreplication repair and prevent mutagenesis
  JOURNAL   Mol Cell 42 (2), 237-249 (2011)
   PUBMED   21396873
REFERENCE   6  (bases 1 to 4787)
  AUTHORS   Ghosh,D., Lippert,D., Krokhin,O., Cortens,J.P. and Wilkins,J.A.
  TITLE     Defining the membrane proteome of NK cells
  JOURNAL   J Mass Spectrom 45 (1), 1-25 (2010)
   PUBMED   19946888
REFERENCE   7  (bases 1 to 4787)
  AUTHORS   MacKay,C., Toth,R. and Rouse,J.
  TITLE     Biochemical characterisation of the SWI/SNF family member HLTF
  JOURNAL   Biochem Biophys Res Commun 390 (2), 187-191 (2009)
   PUBMED   19723507
REFERENCE   8  (bases 1 to 4787)
  AUTHORS   Motegi,A., Liaw,H.J., Lee,K.Y., Roest,H.P., Maas,A., Wu,X.,
            Moinova,H., Markowitz,S.D., Ding,H., Hoeijmakers,J.H. and Myung,K.
  TITLE     Polyubiquitination of proliferating cell nuclear antigen by HLTF
            and SHPRH prevents genomic instability from stalled replication
            forks
  JOURNAL   Proc Natl Acad Sci U S A 105 (34), 12411-12416 (2008)
   PUBMED   18719106
REFERENCE   9  (bases 1 to 4787)
  AUTHORS   Unk,I., Hajdu,I., Fatyol,K., Hurwitz,J., Yoon,J.H., Prakash,L.,
            Prakash,S. and Haracska,L.
  TITLE     Human HLTF functions as a ubiquitin ligase for proliferating cell
            nuclear antigen polyubiquitination
  JOURNAL   Proc Natl Acad Sci U S A 105 (10), 3768-3773 (2008)
   PUBMED   18316726
REFERENCE   10 (bases 1 to 4787)
  AUTHORS   Zhang,Q., Ekhterae,D. and Kim,K.H.
  TITLE     Molecular cloning and characterization of P113, a mouse
            SNF2/SWI2-related transcription factor
  JOURNAL   Gene 202 (1-2), 31-37 (1997)
   PUBMED   9427542
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from CH473961.1.
            
            On or before Oct 4, 2007 this sequence version replaced
            XM_001061239.1, XM_215728.4.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMD00132261,
                              SAMD00132264 [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..4787
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="2"
                     /map="2q24"
     gene            1..4787
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /note="helicase-like transcription factor"
                     /db_xref="GeneID:295568"
                     /db_xref="RGD:1309031"
     exon            1..195
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     CDS             176..3100
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /EC_number="2.3.2.27"
                     /note="SWI/SNF related, matrix associated, actin dependent
                     regulator of chromatin, subfamily a, member 3"
                     /codon_start=1
                     /product="helicase-like transcription factor"
                     /protein_id="NP_001099948.1"
                     /db_xref="GeneID:295568"
                     /db_xref="RGD:1309031"
                     /translation="MSWKFKRDSVWKYSQSAQYGAHENIPRLSYPPFFPRFEFQDIIP
                     PDDFQTSDEELDLVLFGTMRGQVVGIRYYTGVVNNNEMVALEREPNNPYDKNAIKVNN
                     VNGNQVGHLKRDLAAALAYIMDNKLAQVEGVVPFGASNTFTMPLHMTFWGKEENREVV
                     LDHLKKHGFKLGPTPKTVGSSLENTWGSGRAGPSYSRPVHVAVQMTTEQLKTEFDKLF
                     EDLKEDDRTIEMEPAEAVETPLLPHQKQALAWMIARENSKELPPFWELRNDLYYNTIT
                     NFSVKERPENVHGGILADDMGLGKTLTAIAVILTNFDDGRPLLGKRGKESHPGKEYKD
                     ETVKLRGSNTNKTTDGHSEPSACSEEPSISDVSEKSNVSDLFSFFSKRRKISVQSTES
                     SESEEIETSKLSQKMKGKLKNTQLDTKSKVKGTSVMESSKKCDTGERTRTTLIICPLS
                     VLSNWIDQIGQHIKSEVDLNLYVYYGPDRIRDSTWLSKQDIILTTYNILTHDYGTKDN
                     SPLHSIKWLRVILDEGHAIRNPNAQQTKAVLELEAERRWVLTGTPIQNSLKDLWSLLS
                     FLKLKPFTDREWWHRIIQRPVTTGDEGGLRRLQSLIKSITLRRTKTSKIKGKPVLELP
                     ERKVFIQHITLSVEERKIYQSVKNEGKATIARYFTEGTVLAHYADVLGLLLRLRQICC
                     HVHLPTNGTSSSDPSRSDTPEELRKMLVTKMKLILSSGSDEECSICLDSLTFPVITHC
                     AHVFCKPCICQVIQREQPHAKCPLCRSNIHGHNLLECPPEELACDSDNKSDMEWTSSS
                     KINALMNALIELRTKDPNIKSLVVSQFTTFLSLIETPLKASGFVFTRLDGSMAQKKRV
                     ESIQCFQNTDAGSPTIMLLSLKAGGVGLNLCAASRVFLMDPAWNPAAEDQCFDRCHRL
                     GQKQEVIITKFIVKDSVEENMLKIQNMKRELAAGAFGTKKTDADEMKQAKINEIRTLI
                     DL"
     exon            196..403
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            404..570
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            571..704
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            705..802
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            803..877
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            878..1069
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            1070..1165
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            1166..1232
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            1233..1320
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            1321..1400
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            1401..1445
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            1446..1543
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            1544..1687
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            1688..1826
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            1827..1962
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            1963..2142
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            2143..2267
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            2268..2446
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            2447..2572
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            2573..2685
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            2686..2866
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            2867..2947
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
     exon            2948..4787
                     /gene="Hltf"
                     /gene_synonym="Smarca3; Snf2l3"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 tcctcacatt gttgcaggaa ggagtgggcg tagacatgtc tcccggggag cttgtggcct
       61 ccagattctg acttgctttc cggcccctgg gccgctacac cttgaggagc tttttcagac
      121 ggtctgagaa gatccggggt gcccagggca ttccaaagcc actccgcccc ccgccatgtc
      181 ttggaagttc aagagggatt ctgtttggaa gtattcacag tctgcccagt atggagccca
      241 tgaaaatatt ccaagacttt catacccacc tttctttcca cgttttgaat tccaagacat
      301 tatccctcca gatgacttcc aaactagtga tgaagagcta gatttggttt tatttggaac
      361 tatgagagga caagttgttg gaatacgcta ttacacagga gttgtgaata acaatgaaat
      421 ggttgcttta gaacgagagc ctaataaccc gtatgataag aatgctatta aagtaaataa
      481 tgtgaatgga aatcaggttg gccatctaaa gagagatctt gcagctgcct tggcctatat
      541 catggacaac aaattggccc aagtggaagg ggtagttcct tttggtgcaa gtaatacttt
      601 taccatgcct cttcatatga ctttctgggg aaaagaagaa aatagagagg tggttttaga
      661 tcatttgaag aaacatggat ttaagttggg tcccacacca aaaactgtag gatcgagttt
      721 ggagaataca tggggctctg gaagagctgg accaagctat agtaggccgg ttcatgttgc
      781 tgtacagatg acaactgaac agctcaaaac ggaatttgac aaattatttg aagatttaaa
      841 agaagacgat agaactattg aaatggagcc agctgaggct gttgaaacac cattgctccc
      901 acaccaaaaa caagctctag cttggatgat tgcacgagag aacagcaaag aacttccacc
      961 cttctgggaa ctgcgaaatg acctgtatta taatacaata acaaattttt ctgtgaagga
     1021 acgaccagaa aatgttcatg gaggaatttt agctgatgat atgggtttgg gcaaaactct
     1081 tactgctatt gctgtaattc ttaccaactt tgatgatggc aggccgcttc ttggtaaaag
     1141 aggcaaggag agtcacccag gaaaggaata caaggacgag accgttaaac tcagaggaag
     1201 taatacgaac aagacgacag atggacactc agagccatca gcatgtagtg aagaacccag
     1261 tatttcagat gtttcggaga agagtaatgt gtcagatttg tttagtttct tctctaaaag
     1321 aagaaaaatt tctgtacagt ccactgaaag cagtgaatca gaggaaattg aaacaagtaa
     1381 actgtcccag aaaatgaaag gcaagctgaa aaatacacag ttagatacta aaagtaaagt
     1441 aaaaggtaca tctgtgatgg agagctcaaa gaagtgtgac actggagaga ggacaagaac
     1501 aacactgatc atctgtccac tctctgtgct gagcaattgg attgaccaga ttggacaaca
     1561 tataaaatca gaagtggact tgaatcttta tgtttattat ggtcctgatc gtattagaga
     1621 ttcaacctgg ctttcaaaac aggatattat tttgactact tataatattt taactcatga
     1681 ttatggaact aaagataata gtccattaca cagcataaag tggttaagag tgatcctgga
     1741 tgaaggccat gccatacgaa atccaaatgc tcaacagaca aaagctgttc ttgagttaga
     1801 ggcagaaaga agatgggtat tgacaggtac tcctatccag aattctttga aggacttgtg
     1861 gtctcttctg tcctttttaa aactgaaacc atttactgat agagaatggt ggcatagaat
     1921 aatacagcgt cctgtcacaa caggagatga gggaggactt aggcgtttac agtccttaat
     1981 taaaagcatc acacttagaa gaacaaagac aagcaaaatt aaagggaaac ctgtcttgga
     2041 gttaccagaa aggaaagtat ttattcagca cattactctg tcagtcgaag agagaaagat
     2101 ttatcaatct gttaaaaatg aaggcaaagc tactattgca aggtatttta ctgaaggtac
     2161 tgtccttgca cactatgcag atgtcttggg tcttctgctt agactgcggc agatttgttg
     2221 tcatgtccat cttcctacaa atggaacgtc ttcaagtgac ccctccagaa gcgacacacc
     2281 tgaagaactg aggaagatgt tagtaacgaa gatgaagtta attctgagct ctggttcaga
     2341 tgaagaatgt tcaatttgcc tggattcatt aacatttcct gtgatcacac attgtgcaca
     2401 tgtgttttgt aaaccttgca tttgccaggt cattcagcgc gagcagccac atgcaaagtg
     2461 tcctttatgc agaagtaata tacatggaca taatttatta gaatgtcctc cagaagaatt
     2521 ggcatgtgac agtgacaaca agtccgatat ggaatggacg tccagttcaa agattaatgc
     2581 tctaatgaat gctttgattg agttacggac aaaggacccc aacataaaaa gtttagttgt
     2641 ctctcagttt accacattcc tgtctttaat agaaacacca ctgaaagcct caggatttgt
     2701 gtttactcgc ttagacggtt ccatggctca aaagaaaaga gttgaatcaa ttcagtgttt
     2761 tcaaaataca gacgcaggat cacctactat aatgctactg tccttaaaag caggcggagt
     2821 cggcttgaat ctttgtgcag cttctcgagt gttcttaatg gacccagcct ggaatcctgc
     2881 tgcagaggat cagtgctttg accgatgcca tcgacttggc cagaaacaag aggttatcat
     2941 tacaaagttc attgtgaagg attctgttga agaaaatatg ttgaaaatac aaaacatgaa
     3001 aagagagctt gcagccggag cctttggaac taagaaaaca gatgctgatg aaatgaaaca
     3061 agctaaaatc aatgaaatca gaactttaat tgatctataa tttgtggggg ttttctaacg
     3121 acagtttgaa tagatactta agttttatag attaaaacac tgcagattta agaatgagat
     3181 ctagagagtc cttttttttt ttttttccgg agctgggtac cgaatccagg gccttgcgct
     3241 tgctaggcaa gcgctctacc actgagctaa atccccaacc cctagagagt actttttatg
     3301 tggggcatat tttatattaa tacagtggtg ttactgacac atctcttcta ttcactttta
     3361 tgatacttca aatagcagta agttccattg taacctggcc tgaaagacct tttcatagac
     3421 gttcctttgc tctccagctc ttcatgcctt tgctgagtat tttcctacat ttcccatgtg
     3481 ttccatatct tctctgaagt gtggtcgaag cttatacttt tgaaccactt attcaccaaa
     3541 gcctttggtt gatgattcaa tggatccaca gttcttgtaa attattaaca gatgtataca
     3601 gactataaga ttttattgat gttcaaaaat ttatgcatcc ataaaggacc aaagttcaga
     3661 gggcaagtta attgaaattt ttttctttgt tgagatatgt gactcgccat atgtgtttag
     3721 agaaaattta gagagaaaaa aagtacgttt attttagtga agtggtacat tcattattaa
     3781 atgtgataat agaggtagag gtataaataa tatgaagggg tgagggaacc agttctaccc
     3841 ggtttgtttt gaatgcttaa attatgtaat ttaaatagat aatctttact tatgtaggtc
     3901 ttttggaaat aactttataa atttaacaca gaggactact actaaacgtg agaggtatga
     3961 taatcggcat ggaagttggg ctggttgacc accaaagttc aattcttaaa gacatcttaa
     4021 tcctgaatat aaaaatgcct ttgtgggttt agaattagaa tttaattttg gcattttcct
     4081 aattgatctg ttcatttaaa acccgttttc tgggtagttg atgactatga ctcatattta
     4141 aaacaagcag tcaggataga taacaatagc tttattttcc tgtgttgttg ttgctgttgt
     4201 tttgaatcca gagacaagat gactaagaaa agcttcatgg tttatggtgc agactgaaga
     4261 acaacgaaga ttttatttat gctacagaag acttgactaa gagaggtgat cgatagcctt
     4321 gtaaagagta caccacatgt ctgactcact aatcctccct aacgtgttat tcctccgcgg
     4381 gaacaggatt agccagcaag catcttctca gttccgcgtc tcagagcagc caggggaggt
     4441 ggagcagtgt ccagctcagg aagactttct ggagggtagg aagtggaata actgggattg
     4501 gcctgctggg ggtagtagcc cacaggagtt ttttcacctt gtaggactag tatcatacac
     4561 aaatcaagtc tcattatgta tgacattaga attctttagt tcccatacac agtgaactta
     4621 agtataaact ggttatggcc caaataaaca agaaacccag tttacttatt ttaattacaa
     4681 atagactgag gctcaaaagt aaaggccatg tgcttcttcc ccagaaaacc acagagctat
     4741 gctataaaac tttgagaaca atcaagtttg gtgttaataa aaaaagt
//
