LOCUS       XM_039078396            4332 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus homeo box C4 (Hoxc4), transcript
            variant X2, mRNA.
ACCESSION   XM_039078396
VERSION     XM_039078396.1
DBLINK      BioProject: PRJNA677964
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.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_051342.1) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Updated annotation
            Annotation Name             :: GCF_015227675.2-RS_2023_06
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.1
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 06/06/2023
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..4332
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="7"
                     /sex="male"
                     /tissue_type="kidney"
                     /geo_loc_name="USA: Wisconsin, Milwaukee, Medical College
                     of Wisconsin"
                     /collection_date="2019-03-08"
                     /collected_by="Rebecca Schilling"
     gene            1..4332
                     /gene="Hoxc4"
                     /gene_synonym="Hox3r3"
                     /note="homeo box C4; Derived by automated computational
                     analysis using gene prediction method: Gnomon. Supporting
                     evidence includes similarity to: 1 mRNA, 6 ESTs, 26
                     Proteins, and 100% coverage of the annotated genomic
                     feature by RNAseq alignments, including 43 samples with
                     support for all annotated introns"
                     /db_xref="GeneID:24459"
                     /db_xref="RGD:1586210"
     CDS             2692..3486
                     /gene="Hoxc4"
                     /gene_synonym="Hox3r3"
                     /codon_start=1
                     /product="homeobox protein Hox-C4 isoform X1"
                     /protein_id="XP_038934324.1"
                     /db_xref="GeneID:24459"
                     /db_xref="RGD:1586210"
                     /translation="MIMSSYLMDSNYIDPKFPPCEEYSQNSYIPEHSPEYYGRTRESG
                     FQHHHQELYPPPPPRPSYPERQYSCTSLQGPGNSRAHGPAQAGHHHPEKSQPLCEPAP
                     LSGASASPSPAPPACSQPAPDHPSSAASKQPIVYPWMKKIHVSTVNPNYNGGEPKRSR
                     TAYTRQQVLELEKEFHYNRYLTRRRRIEIAHSLCLSERQIKIWFQNRRMKWKKDHRLP
                     NTKVRSAPPAGAAPSTLSAATPGTSEDHSQSATPPEQQRAEDITRL"
ORIGIN      
        1 cgtgagggta attaggggag gtaaaatggg aggatggggt taaagctgaa atcctggtag
       61 tgggggaaat gtgttgtcct gatgtcgatg tgcgccgaag ttggggtcct gggcgggaga
      121 atcttagccc gccggacgga agtccctggt ctggggcgcg gggccctctg cctggtgccc
      181 acagtgtctg tacctgttta ttagctgact actctgggct gatgaactgg gacgtggtgg
      241 cctggaagct caaacttcaa ggctggagag agaatctgta gtctaggccc attgccccct
      301 aagcaacgtc agctcctcaa cccccaaaca aactttccag agccccctcc ctgtccggca
      361 gccccctcct tcttggagag ctagaagcca ggcctcacac atgcgcagtg tgagcccagg
      421 gctgagccgc ggagcaggaa gcgggcgcag ctaggcgggc ggcggagcct gttaattggc
      481 aattaggggg gaggctggtg gctggtgcgc gtcagccaag gggagagagt ctgcccaccc
      541 ctgctcccgc ccccaccctg gcgcatagaa gggtgggagg cgccctacgc tgcgggtgga
      601 aggagttggg ggtggggatg cagagctcaa aagccatctt gtgctcggag aaaagctgcc
      661 taaatgctta cccccctcat aagccgggcg ccccccaccc ccccacttgc ggccactcca
      721 ctcgggatgc cattccaact tcctcctgag ccttgcagga ctgctctaga ttaagacccg
      781 ccttgttccg gtggaggtgg gaatgagaga ggcctccggt tgggcgggga tagaccaggc
      841 cgtgccccca ggacctggag ggtgctgcaa gccccccacc ccccagcact ttatgggtgg
      901 gatgggtgag tttcccaccg taaaggcgtc agactaaggt ggtgggtaga gtcctggatc
      961 ttcctaataa ttggtgctaa tgacgtgttg tataatctta acctgacaca tatggtttca
     1021 taacatagta gcttaatttc ttccaaatgt acatggccct gactgcattg cagtttgata
     1081 tatgaccccg ccctgcttcc aggcttgggt ctgaggcgac cctgttagtg agagattgtg
     1141 tttataagga gcggcgtgca cacagaatgc ttacacaccc aaacagacac cccttagagt
     1201 tgggaaggcg gcatgctcct ggcgaggtcc cagacactag gagacagact cacaccttca
     1261 gtctacgtca gtctcacccc cctcatcttc tcctctccca gaagctcgtc tgagagtctt
     1321 cgcccagcag tgtgggggaa gggatagctg tatttcctgt ttaaacccag atctatcgct
     1381 ggggtggggg gggggcgcag tggttagaga acccgttttt atgaaattat taaaaaaata
     1441 tagttcgatt tcattcagat caaacccttt gagctcgagc ctatggtgaa tcctccctcc
     1501 catcccccca caaccacctt cccttctcca gcccccccaa aattcccctt ttgcagtcga
     1561 cataaaggcc tctgaggtat tctctcgggg aaagaaatgg cattttctct cccctttccc
     1621 accccacccc ccaataggac tggtgtgtag gcagaggcgt ctgccgaggg gctaatttcg
     1681 cgttccttgt ttacgaccaa gaaaagcgct tggctctccc caaatgggcc cagcctgccg
     1741 cctgctccgg ctgccgcgca ctctcccgcc gcccgagcct ggtcccccag gcagatgctt
     1801 cggggaacca ggctacggct gaccaggacg ggggtctgtg gaacctgaaa agggccaggg
     1861 gagtacgctg agacagtgga ggggccctgg aggcccgaac gtgagccttc tcccggcgta
     1921 ctgtgggaac cgccgatcga gggggctcaa gccctagact tccagaaatg acgtcaggat
     1981 catttgcatc cagctgcctc aacctgccta gtaccgctgg gaccctgtct ccaaggcccc
     2041 ttggccaaga gggttgggtg agtgtgtatg gtagagggga aatgggcttc aggatccttg
     2101 gatggggtag ggcagctcag gctctccagc cttctaagct cagcctgggc ccctccccat
     2161 ccaacctcca ctgaaaccct cattgaactt cctcttcctg cgaaagaggg gcgctgccct
     2221 atgacctaca cagactgcaa caagatttcc ataatggaga ccactggaaa ggcactggag
     2281 ccgaggccca ccgggtccac tgaaggccgg agaggagact ctgggtgggg gctgaatcac
     2341 agcctaccaa cagcccccaa tgcccagaca ttggagtcga gctgggagcc acccatcttc
     2401 tgcaagggag gattgtcagt ctggtggggt gtgcaatggt gagcacccca gcttctgcca
     2461 gccatccccc caccccaccc cctcagcagc agcagcacca cacacacaaa aaattggata
     2521 cattttgaat aaagcgattc ggttccttat ccggggactg agttgctcgg tgtgattggc
     2581 cggcggagtc acatggtgaa agtaacttta cagggtcgct agctagtagg agggctttat
     2641 ggagcagaaa aacgacaaag cgagaaaaat tattttccac tccagaaatt aatgatcatg
     2701 agctcgtatt tgatggactc taactacatc gatccgaaat ttcctccatg cgaagaatat
     2761 tcgcaaaata gctacatccc tgaacacagt ccggaatatt acggccggac cagggaatcg
     2821 ggattccagc atcaccacca ggagctgtac ccaccaccgc ctccgcgccc tagctaccct
     2881 gagcgtcagt atagctgcac cagtctccag gggcccggca attcgcgagc ccacgggccg
     2941 gcccaggcgg gccaccacca ccctgagaaa tcgcagccgc tctgcgagcc ggcgcctctc
     3001 tcaggcgcct ctgcctcccc gtccccagcc ccgccagcct gcagccagcc agcccctgac
     3061 catccctcca gcgccgccag caagcagccc atagtctacc cttggatgaa aaaaattcac
     3121 gttagcacgg tgaaccccaa ttataacgga ggggagccca agcgctcgag gacagcctac
     3181 acccggcagc aggtcctgga attagagaaa gagtttcatt acaaccgcta cctgacccga
     3241 aggagaagga tcgagatcgc ccactcgctg tgcctctctg agaggcagat caaaatctgg
     3301 ttccaaaacc gtcgcatgaa atggaagaag gaccaccgac tccccaacac caaagtgagg
     3361 tcagcgcccc cggccggcgc tgcacccagc accctctcgg cagccacccc cggcacttct
     3421 gaagaccact cccagagcgc cacgccgccg gagcagcaac gggcagagga catcaccagg
     3481 ttataagaca taacttacac ccctgccccc accctgtgct ccgtgccccc tcacacacaa
     3541 attgactctt atttatagaa tttaatatat atatattttt ggttcttttt ttctctctct
     3601 tcctcctgtc tcctcccttg tcagttccaa acagacaaaa cagataaaca aacaagcccc
     3661 ttgccctttt ccctttgctg ttaaggaccc ctttaagcat gtggtgttgt cttagcatgg
     3721 tacctgctgg gttttatttt ttgttgtttt gttttgtttt gctttgcttt gcttttaagg
     3781 ccattggggg gtatttattt tttaaggaaa aaaagctgca aaaattatat attgcaaggt
     3841 gtgatggtct ggtttgggtg aatttcaggg gaaatgagga acagaaaaag gaaagggaga
     3901 tttgtaagtg gattctcatc ctctctcctc ctcacccccc ctccctttcc ttaggccttt
     3961 tgcattgaaa atgcaccagg ggaggttagt gagggggggg agtcatttta aggagaacaa
     4021 agctatgaag ttcttttgta ttcttgtggg ggggtggtag gaggggggag gacagcaaac
     4081 aaagctaaat gcatctggag agcctctggg agctgttcag tttgaggagc caaaaaataa
     4141 ataaataaat aaaaatgaac tttcagttca gagaggcagt ctataggtag atgctcccct
     4201 acccccatcg tggttattgt gtttttggac tgaatttact tgattattgt aaaacttgca
     4261 ataaagaatt ttagtgttga tgtgaaatgc ccccgtgatc aataataaac cagtggctgt
     4321 gaattagttt ta
//
