LOCUS       NM_001108116            2734 bp    mRNA    linear   ROD 20-MAR-2023
DEFINITION  Rattus norvegicus homeo box C5 (Hoxc5), mRNA.
ACCESSION   NM_001108116 XM_235702
VERSION     NM_001108116.1
KEYWORDS    RefSeq; RefSeq Select.
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 2734)
  AUTHORS   Moon SM, Ahn MY, Kwon SM, Kim SA, Ahn SG and Yoon JH.
  TITLE     Homeobox C5 expression is associated with the progression of
            4-nitroquinoline 1-oxide-induced rat tongue carcinogenesis
  JOURNAL   J Oral Pathol Med 41 (6), 470-476 (2012)
   PUBMED   22385119
  REMARK    GeneRIF: These results indicate that overexpression of HOXC5 is
            correlated with oral carcinogenesis and strongly contributed to the
            development of OSCC. HOXC5 may be a useful biomarker and has an
            emerging therapeutic target of OSCC.
REFERENCE   2  (bases 1 to 2734)
  AUTHORS   McIntyre DC, Rakshit S, Yallowitz AR, Loken L, Jeannotte L,
            Capecchi MR and Wellik DM.
  TITLE     Hox patterning of the vertebrate rib cage
  JOURNAL   Development 134 (16), 2981-2989 (2007)
   PUBMED   17626057
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from CH474035.2.
            
            On Oct 4, 2007 this sequence version replaced XM_235702.3.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AW530620.1, BF565809.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMD00132261, SAMD00132262
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..2734
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="7"
                     /map="7q36"
     gene            1..2734
                     /gene="Hoxc5"
                     /note="homeo box C5"
                     /db_xref="GeneID:315341"
                     /db_xref="RGD:1307584"
     exon            1..528
                     /gene="Hoxc5"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    33..35
                     /gene="Hoxc5"
                     /note="upstream in-frame stop codon"
     CDS             75..743
                     /gene="Hoxc5"
                     /codon_start=1
                     /product="homeobox protein Hox-C5"
                     /protein_id="NP_001101586.1"
                     /db_xref="GeneID:315341"
                     /db_xref="RGD:1307584"
                     /translation="

MSSYVANSFYKQSPNIPAYNMQTCGNYGSASEVQASRYCYGGLDLSITFPPPAPSNSLHGVDMAANPRAHPDRPACSAAAAPGHALGRDEAAPLNPGMYSQKAARPALEERAKSSGEIKEEQAQTGQPAGLSQPPAPPQIYPWMTKLHMSHETDGKRSRTSYTRYQTLELEKEFHFNRYLTRRRRIEIANNLCLNERQIKIWFQNRRMKWKKDSKMKSKEAL"

     misc_feature    267..>500
                     /gene="Hoxc5"
                     /note="Uncharacterized membrane protein [Function
                     unknown]; Region: COG5373"
                     /db_xref="CDD:227665"
     misc_feature    order(540..554,558..560,609..611,627..629,666..668,
                     672..677,684..689,693..701,705..710)
                     /gene="Hoxc5"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238039"
     misc_feature    546..707
                     /gene="Hoxc5"
                     /note="Homeobox domain; Region: Homeobox; pfam00046"
                     /db_xref="CDD:425441"
     misc_feature    order(546..548,555..557,675..677,684..689,696..698)
                     /gene="Hoxc5"
                     /note="specific DNA base contacts [nucleotide binding];
                     other site"
                     /db_xref="CDD:238039"
     exon            529..2734
                     /gene="Hoxc5"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

cccctcaacttcaaagagtcacaaatcacccttaatcaaaaagggtgcagaaatttttttgggccctccccgccatgagctcctacgtagccaattcattctataagcagagccccaatatccctgcctataacatgcaaacttgtgggaactatggatcggcctcagaggtgcaggcatccaggtactgctacggcggattggacttaagcatcactttcccaccgcctgcgccttccaactctctccacggggtagacatggctgccaacccccgggctcaccccgaccgccccgcctgcagcgctgcggccgctccgggacacgctctgggcagagacgaagcggctcctctgaaccctgggatgtacagtcagaaggcggcccgcccggcgctggaggagcgagctaagagcagtggggagatcaaagaggagcaggcgcagacagggcagcctgccggactgagccagccaccggccccgccacagatttacccgtggatgaccaaactgcacatgagccacgagacggatggcaagcggtcccgaaccagttacacgcgctaccagaccctggaactcgagaaagaattccattttaaccgctacctcactcgccgcaggcgcatagagatcgccaacaacttgtgtctcaacgagagacagatcaagatctggttccagaaccgcaggatgaagtggaagaaagattccaaaatgaagagcaaagaggctctttagagcaagcagggagccctcctcagagagcaccctggtccgctgtggtccctgcgcccttccttttcggttttcctccttctagattttgaggcaaaggctagagcactggctcccggcctcccagacaaaagcgcatttctttggcattccgaatccccatcgacccagggttctgcaggaccgcctgcactgcctgtcttgcctcagctcagctgagcaccccaggcccggggcacattcttgtagggcgggtactgaataagcctcagtctgggttgcctctcccagctctgagccctagctcggctaacctgagttaaggtgagacagactgtaaccccttctccccgacctccacctcacccccttctttgttcctgcctaggctggccaggctgctgaaggctggttgtgccaggcagagcctatggccagaatccggggtgctttcaactaacctttataacttctaaactcgtctttgcttattaatgatttgcatatgaaagagggagataagtgaaagtgggcctgtagccctggaggttgtcctatgctctctaaaccttccaaccccctccctaaagcccgggatcttccctagcctggcttgctgcatgcactctcaggttcacagtcccagcctgctagctagctcaactattggggtctcttgcctttggaccctagcaagtggttctttgaagctttttgctatcctatgtatcttgccatgactttctcaccttcctgcccccattgcagttgcccaactatttattgactccaagtccttcctgaaactatattttgtcatatcaaataaagccagaaaaagaacaggactaaagattcaatgacttctgtctgtttagggcatgcattgagtagatgtgtgtaaataggctctgagatgtatggggaggccctgtctctaagccacccctttaaaaatatttttaagcacgtttaggatcagcaaggatagggaaaaactgagtgcctttttgattcatggttccaagaagggcctctggggtgaaggggagtacactggagagctcctgtactgttgtactgtcgtttccacatgatgtggggtgtacaaggcacccagacttttctatatcttattctcatgttggctaaaaagactcgaggcttctagactttctgtagtctgtgctttatgtcagagcaaaggaacttgtggctccactgacttagattcaggcccttctgggtctaggttatccctggggttcttttctggacatggaagaacggctgggtcctcagtcttgggctatgtttgatctcagaggattctcagcaatcgtaggcagtacttggtaaaggggttttggagaagaggagttgaccttggtttgagatgttcttcagctttctaagacatgggatggggcaagggggactagggggacactgaatgcaacctgcagtgtgtgcttgccttagagaaaacatacaaactgctccctgtcttctaaggtctaagccaatgcagggcagttaactggagtaagagcggtgtagaccagggcaggatccatgcctatttgtcatctatcacagtctctgagattttgtataaatggggagggtggctgataggagaggggacacagctaattcacagggggcggggctggcctaggctcatgctcttgccagctccactccagggtccacgagatggaggagggagtactttacaggagaaacaaatgcggtgtaggtccataaaactttactgcacttcctctccagcttcccacaatggggtgatttcctggagccaagcctaggccccccaccctggaggagtggggatctgaagccgggctaaaggctgctctacactaggacagaaagagaacagagtaactctgaggaggggcagggagatttctttttatgattattaatgtttatgctctttggatttattgaaggtctgacttcactgc

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