LOCUS       NM_001107694            4175 bp    mRNA    linear   ROD 12-APR-2023
DEFINITION  Rattus norvegicus regulatory factor X5 (Rfx5), transcript variant
            1, mRNA.
ACCESSION   NM_001107694 XM_001053892 XM_227426
VERSION     NM_001107694.1
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 4175)
  AUTHORS   Jolma A, Yan J, Whitington T, Toivonen J, Nitta KR, Rastas P,
            Morgunova E, Enge M, Taipale M, Wei G, Palin K, Vaquerizas JM,
            Vincentelli R, Luscombe NM, Hughes TR, Lemaire P, Ukkonen E,
            Kivioja T and Taipale J.
  TITLE     DNA-binding specificities of human transcription factors
  JOURNAL   Cell 152 (1-2), 327-339 (2013)
   PUBMED   23332764
REFERENCE   2  (bases 1 to 4175)
  AUTHORS   Buch T, Polic B, Clausen BE, Weiss S, Akilli-Ozturk O, Chang CH,
            Flavell R, Schulz A, Jonjic S, Waisman A and Forster I.
  TITLE     MHC class II expression through a hitherto unknown pathway supports
            T helper cell-dependent immune responses: implications for MHC
            class II deficiency
  JOURNAL   Blood 107 (4), 1434-1444 (2006)
   PUBMED   16254146
REFERENCE   3  (bases 1 to 4175)
  AUTHORS   Xu Y, Wang L, Buttice G, Sengupta PK and Smith BD.
  TITLE     Interferon gamma repression of collagen (COL1A2) transcription is
            mediated by the RFX5 complex
  JOURNAL   J Biol Chem 278 (49), 49134-49144 (2003)
   PUBMED   12968017
  REMARK    GeneRIF: RFX5 binds to the collagen transcription start site and
            represses collagen gene expression.
REFERENCE   4  (bases 1 to 4175)
  AUTHORS   Brickey WJ, Wright KL, Zhu XS and Ting JP.
  TITLE     Analysis of the defect in IFN-gamma induction of MHC class II genes
            in G1B cells: identification of a novel and functionally critical
            leucine-rich motif (62-LYLYLQL-68) in the regulatory factor X 5
            transcription factor
  JOURNAL   J Immunol 163 (12), 6622-6630 (1999)
   PUBMED   10586057
REFERENCE   5  (bases 1 to 4175)
  AUTHORS   Masternak K, Barras E, Zufferey M, Conrad B, Corthals G, Aebersold
            R, Sanchez JC, Hochstrasser DF, Mach B and Reith W.
  TITLE     A gene encoding a novel RFX-associated transactivator is mutated in
            the majority of MHC class II deficiency patients
  JOURNAL   Nat Genet 20 (3), 273-277 (1998)
   PUBMED   9806546
REFERENCE   6  (bases 1 to 4175)
  AUTHORS   Villard J, Reith W, Barras E, Gos A, Morris MA, Antonarakis SE, Van
            den Elsen PJ and Mach B.
  TITLE     Analysis of mutations and chromosomal localisation of the gene
            encoding RFX5, a novel transcription factor affected in major
            histocompatibility complex class II deficiency
  JOURNAL   Hum Mutat 10 (6), 430-435 (1997)
   PUBMED   9401005
REFERENCE   7  (bases 1 to 4175)
  AUTHORS   Steimle V, Durand B, Barras E, Zufferey M, Hadam MR, Mach B and
            Reith W.
  TITLE     A novel DNA-binding regulatory factor is mutated in primary MHC
            class II deficiency (bare lymphocyte syndrome)
  JOURNAL   Genes Dev 9 (9), 1021-1032 (1995)
   PUBMED   7744245
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CH474015.2.
            
            On or before Oct 4, 2007 this sequence version replaced
            XM_001053892.1, XM_227426.4.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMD00132263,
                              SAMD00132279 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            inferred exon combination :: based on alignments, homology
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..4175
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="2"
                     /map="2q34"
     gene            1..4175
                     /gene="Rfx5"
                     /note="regulatory factor X5"
                     /db_xref="GeneID:310659"
                     /db_xref="RGD:1311677"
     exon            1..81
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
     exon            82..108
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
     exon            109..240
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
     CDS             128..2173
                     /gene="Rfx5"
                     /note="regulator factor X 5; regulatory factor X, 5
                     (influences HLA class II expression)"
                     /codon_start=1
                     /product="DNA-binding protein RFX5"
                     /protein_id="NP_001101164.1"
                     /db_xref="GeneID:310659"
                     /db_xref="RGD:1311677"
                     /translation="MAEDNPDAKSPKTGARPQGGAEAGEPTTLLQRLRGTISKAVQNK
                     VEGILQEVQKFSDNDKLYLYLQLPSGPSTGDKSSEPSILSNEEYMYAYRWIRNHLEEH
                     MDTCLPKQSVYDAYRKYCESLACCRPLSTANFGKIIREIFPDIKARRLGGRGQSKYCY
                     SGIRRKTLVSMPPLPGLDLKGSESPEMGPEVSPAPRDELVEAACALTCDWAERILKRS
                     FSSIVQVARYLLQQHLISARSAHAHVLKAGGLAEEEERGPRERSSCKSKNGVENLEGG
                     GPKKPERPAQPPKELEARAGTDSPGRSERKKSVIDSSVPAASKPQVNALVARLPVLLP
                     RAPRSLITPISGTLKVATLPLPTRVGGPQAAVPIINMILPPVPTLSGPGPGPGLGPRF
                     GPGPGSGSGPGLGAGPGPGPGPGLGAGPGLGPGLGAGVGPGPGLGAGPGQRPGLRAGV
                     GPGPGLGAGLGLGPGRVPPRAPILPRGTESREVGISGDPRPHDKGVKRTAEVPLSEAS
                     GQDPPVKEMKHETEDTVSEAKRKRGRPRKKTGGSGERNATPEKSAAAVNSPRSPRLLW
                     ETWGSKRENNLVGRPERPGAVGEAQRETVLAQGQEDGAVSKGEKSLSSQEAKEAEDKI
                     PPVTSKVSVIKGRIQKEALQLVKGEADAATQGNKGLKGRVLQSSLTHEHKDPKATPP"
     exon            241..274
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
     exon            275..357
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
     exon            358..477
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
     exon            478..597
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
     exon            598..679
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
     exon            680..881
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
     exon            882..985
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
     exon            986..4175
                     /gene="Rfx5"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ctggatctgc ggtagccacg gggtagtttc tctttctctc ttacctatct aatgtccgtg
       61 ctggaaggcg acggttccga gttttctaga tttgggagac ttcaaaagcg gtagtcctca
      121 tgctgggatg gcagaagata accctgatgc taagagcccc aagactgggg caaggcccca
      181 aggtggtgct gaggctgggg aacctaccac ccttctccag aggctccgag gtaccatttc
      241 caaggccgtg cagaacaaag tagaggggat tctgcaagaa gtacagaagt tctcagacaa
      301 cgacaagctg tacctctacc tgcagcttcc ttcagggccc agcactggag ataagagctc
      361 ggagccgagt atactgagca atgaggagta catgtacgcc tacaggtgga tccgcaacca
      421 cctggaagag cacatggaca cctgtctgcc aaagcagagc gtctatgatg cctatcgaaa
      481 gtactgcgag agccttgcct gttgccgccc actcagcaca gcgaactttg gtaaaatcat
      541 cagagagatc ttccctgaca tcaaggcccg gagacttggt ggtcggggcc agtccaaata
      601 ttgctacagt ggcatacgaa ggaagacctt ggtatctatg ccgccattgc ctgggcttga
      661 cttgaaggga tctgagagtc cagaaatggg cccagaggtg agcccagcgc cgagggatga
      721 gctggtggaa gcggcctgcg ccctgacttg tgactgggcg gagcggatct tgaagcggtc
      781 cttcagttcc atcgttcagg tggcccggta cctcctgcag cagcacctca tctcagcccg
      841 gtcggcacat gctcacgttc tcaaggcagg ggggcttgcc gaagaggaag aaagaggccc
      901 tcgagaacgg tcatcatgta agtccaagaa tggtgtagag aacctggaag gtggaggacc
      961 taagaaacca gagagaccag cgcagcctcc taaagagcta gaagcccgag ctgggactga
     1021 ctctccaggg cgttcagaac ggaagaagag tgtaattgac agctcagttc cagcagccag
     1081 taagccacaa gttaatgccc ttgtggctcg actgcctgtg ctccttccaa gagcaccacg
     1141 atcacttatc acacccattt caggcactct gaaagtagcc acgctgcctc tgccgaccag
     1201 ggtaggagga ccccaggctg ctgtacccat cattaacatg atcttaccac ctgttcctac
     1261 tctgtcaggg cctgggcctg ggcctggcct tgggcctagg tttgggccag ggcctgggtc
     1321 agggtcaggg cctgggcttg gggctgggcc tgggcctgga ccaggacctg ggcttggagc
     1381 ggggcctggg cttgggcctg ggcttggggc tggggtcggg ccagggcctg ggcttggagc
     1441 tgggcctggg caaaggcctg ggcttagggc tggggtcggg cctgggcctg ggcttggggc
     1501 tgggctaggg cttgggcctg ggcgagttcc acctagagca cccattctgc ctcgaggtac
     1561 agagagcagg gaggtaggca taagtggtga cccaagaccg catgacaagg gtgttaaaag
     1621 gacagctgaa gtgcctctga gtgaagccag tgggcaggac ccaccagtta aagaaatgaa
     1681 gcacgaaaca gaggatacag taagtgaagc gaaaaggaag cggggacgcc ctcgaaaaaa
     1741 aacagggggg agtggggaga gaaacgccac tcctgagaag tctgcggctg ctgtgaactc
     1801 cccccgatcc ccaaggttac tctgggaaac atggggctca aaacgagaaa acaacttagt
     1861 tgggagacca gaaagaccag gggcagtggg tgaagctcag cgggaaacag tgcttgctca
     1921 aggtcaggaa gatggtgctg tttccaaagg agaaaagagc ttgagttccc aggaagccaa
     1981 agaagcagaa gataaaattc ctcctgtcac ctcaaaagtg agtgttatca agggcagaat
     2041 tcaaaaggag gctcttcagt tggtaaaggg agaggctgat gctgcaacac agggcaacaa
     2101 agggttaaag ggccgtgtac ttcaaagttc cctaacccat gagcataaag accccaaagc
     2161 aacaccccca tgatagacag gtctgtcagg gaagcgtggc catgttcatg tgagctctgc
     2221 ctgcctgcct ggtagaggcc cttcactgcg cccgcctctc acccagctag tctttcccca
     2281 gggagcccac tggcctggct tgcatcgtgc ctcgtggctg cttcaggcct ttctagctct
     2341 gtactgtggc tttaatacaa acagtaaatc tgtaatgact tcccacctat atccctatgc
     2401 tctcctgggg ggatggggta agtatgaatg tagcttaggg atattctggc ttctaatcat
     2461 agggaactta aaactcacta aagataaaag cagtttatca gctgatgacg ttgcagagtc
     2521 cagaggcagt cctggctcca ggtgaggctt gatctgattg catactctgt tcttctgctt
     2581 cacataatgt aaaatcaccc ttagtttgga ccacttcaca gctgccaaca ctcctaggct
     2641 tccgtttgac cattgtatct aagcagaaag aaagggtatc attgtgccag aaatcctagc
     2701 aaaagcccaa agatttacca tgtttaacca gcctaggtca ggtccactct tgaccgacta
     2761 gtgtggccag gaagatgttt atgcagtgtg tctctagaca tggaccacct ttaggaaaag
     2821 ggtgcagtca gccttctcac aatcccaggt tccccagatg gagacttggg tggaggacgg
     2881 aggaggtgct ggggagcagc gaccaactac tcggtgtgcg ttagcttgct gagctggggt
     2941 gagctggact tctgcctttc ccctgaacct tgcctctccc tcagtacagc tgtaacttct
     3001 tatctcactg tggtctggga aggacagaga aggaagccat tctctttagt ctcttaattc
     3061 ttacaggacc tctgtctcct agaacaagct ccttttaggg tctgaatctt attttctctg
     3121 aagccctgtt tcctacctcc caatctagtg ccaccttctc agaggacatg atcaccccac
     3181 cctaccccgt catttcctta cattcattct acatccatca gatgtcatgc tcttgtcata
     3241 cgtgtgtcag gacctagcca ggactgtggg ttaggctgga ctagcagagg aggtgacgct
     3301 gatgctgcaa gtcagggagc accaacagga aggatgcaga tgccccagaa gtatccttgg
     3361 gaacagcaga aaccagccta tgtcattcga ggacctaccc tgtcctcccc acaggatgga
     3421 tagcttcgtg tcagggagtc ttggttttag tcccaagaaa tagattttct ttcagggaga
     3481 tatcacccat ttgtccattt atttccatga gagcagattt tttaaaaaat atttgatatc
     3541 tataaagaag tatgtactat aaattatgaa atgcaatgcg tacctatgac ccatcatcca
     3601 atttatacat taaaaatact attagatttt tgtccccttg cccagcctct tcctagaggt
     3661 agccactgtc tttaatttta tgctcattaa tcacttgttt atatatattg gccatgtgtg
     3721 tatatattct ttaagaatgt attattttgt attgcttgta cttttagctt tacaaaaatg
     3781 ttgtactctg ttccttgagg tttgcttttt tgcacttaac cattgtttgt aagactcctc
     3841 tacgttgtga ttgctataac ttgttcattt ccatctgtat aatactccac caagcagaca
     3901 aaacaactta ggtagccact cacctgctga ataacatttg ggctgtttgc aggtttctgt
     3961 tcttatacac aatgctgcta tgaacattct tgtatatgag tgcctttgtt tttagtaaga
     4021 tttctaaaga ggtttctaag atggtcctga atggtccttt tggtctgcgt acctctgagc
     4081 gggggactgt tgcctcttgt cttactttat ggaagagttt acatcacata gaaatgaact
     4141 gttcttgaat gtttgataaa aactcaccta taaag
//
