LOCUS       NM_001395571            9360 bp    mRNA    linear   ROD 31-MAR-2024
DEFINITION  Rattus norvegicus highly divergent homeobox (Hdx), transcript
            variant 1, mRNA.
ACCESSION   NM_001395571 XM_039099855
VERSION     NM_001395571.1
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 9360)
  AUTHORS   Gaudet,P., Livstone,M.S., Lewis,S.E. and Thomas,P.D.
  TITLE     Phylogenetic-based propagation of functional annotations within the
            Gene Ontology consortium
  JOURNAL   Brief Bioinform 12 (5), 449-462 (2011)
   PUBMED   21873635
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000021.1.
            
            On Jul 20, 2021 this sequence version replaced XM_039099855.1.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26360172.1206890.1,
                                           SRR26360186.1860755.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760386 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-113               JAXUCZ010000021.1  80881400-80881512   c
            114-260             JAXUCZ010000021.1  80848944-80849090   c
            261-1370            JAXUCZ010000021.1  80838684-80839793   c
            1371-1424           JAXUCZ010000021.1  80827998-80828051   c
            1425-1571           JAXUCZ010000021.1  80792089-80792235   c
            1572-1779           JAXUCZ010000021.1  80778613-80778820   c
            1780-1859           JAXUCZ010000021.1  80771392-80771471   c
            1860-1943           JAXUCZ010000021.1  80761716-80761799   c
            1944-2066           JAXUCZ010000021.1  80751640-80751762   c
            2067-9360           JAXUCZ010000021.1  80739615-80746908   c
FEATURES             Location/Qualifiers
     source          1..9360
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="X"
                     /map="Xq31"
     gene            1..9360
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /note="highly divergent homeobox"
                     /db_xref="GeneID:317617"
                     /db_xref="RGD:1563666"
     exon            1..113
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /inference="alignment:Splign:2.1.0"
     CDS             114..2192
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /note="isoform 1 is encoded by transcript variant 1"
                     /codon_start=1
                     /product="highly divergent homeobox isoform 1"
                     /protein_id="NP_001382500.1"
                     /db_xref="GeneID:317617"
                     /db_xref="RGD:1563666"
                     /translation="MNLRSVFTVEQQRILQRYYENGMTNQSKNCFQLILQCAQEAKLD
                     FSVVRTWVGNKRRKMSSKSCESGTAGTVSGTSLAAPDITVRNVVNIARPSSQQSSWTS
                     ANNDVIVTGIYSPAGSSSKQGTTKHTNTQITEAQKIPIQKAASKNDTEFQLHIPVQRQ
                     VAHCKNASVLLGEKTIILSRQTSVLNAGNSVYNHTKKSYASSPVQASEMTVPQKPSVC
                     QRPCKIEPVGIQRSYKPEHAALASHNLCGQKPTSRDPCCRTQNLEIREVFSLAVSDYP
                     QRILGGNTTQKPGSAEGTCLSIAMETGDAEDEYAREEELASMGAQITSYSRFYESGSS
                     LRAENQSTTLPGPGRNLSNSQMVNIRDVSDNVLYQTRDYHLTPRTSLHTASSTMYSNT
                     NPSRSNFSPHFVSTNQLRLSQNQNNYQISGNLSVPWITGCSRKRALQDRTQFSDRDLA
                     TLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKYRLMGIEVPPPRG
                     GPADFSEQPESGSLSVLTPGEEAGPEVGEDNDRNDEVSICLSEASSQEESNELIPNEA
                     RAHKDEEHQAVSADNVKIEIIDDEESDMISNSEVEQENSLLDYKNEEVRFIENELEIQ
                     KQKYFKLQTFVRNLILAMKADDKEQQQALLSDLPPELEEMDFSHASPDPDDTSFSVSS
                     LSEKNASDSL"
     exon            114..260
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /inference="alignment:Splign:2.1.0"
     exon            261..1370
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /inference="alignment:Splign:2.1.0"
     exon            1371..1424
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /inference="alignment:Splign:2.1.0"
     exon            1425..1571
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /inference="alignment:Splign:2.1.0"
     exon            1572..1779
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /inference="alignment:Splign:2.1.0"
     exon            1780..1859
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /inference="alignment:Splign:2.1.0"
     exon            1860..1943
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /inference="alignment:Splign:2.1.0"
     exon            1944..2066
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /inference="alignment:Splign:2.1.0"
     exon            2067..9360
                     /gene="Hdx"
                     /gene_synonym="RGD1563666"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 attgtctgag gcggcagtgg agacccagga aaaaatctcg cggattccgc ctgatctggc
       61 cctagtctca tcttggatcc tctgatctct tccgtgaccg caccacgccc gagatgaatc
      121 tacgttctgt atttactgta gagcaacaaa ggattttaca gcgttattat gaaaatggaa
      181 tgacaaatca aagtaaaaat tgctttcagc tcatattaca gtgtgcacag gaggctaagc
      241 tggacttcag tgtagtcagg acgtgggttg gcaataagcg aagaaaaatg agtagtaaaa
      301 gctgtgagtc aggaacagca ggaactgtgt ctggtacctc attggcagct ccggacatta
      361 cagtcagaaa tgtggttaat attgcccgcc cttccagcca gcaatcttct tggacttctg
      421 ccaataatga tgtcattgta actggcatat acagtccggc aggctcatca agtaagcaag
      481 gcactacaaa gcatacaaat acacaaatta cagaagcaca gaaaattcct attcagaagg
      541 cagccagtaa aaatgacact gaatttcaat tgcacattcc tgttcaaaga caagtagcac
      601 actgtaaaaa tgcttctgtg ctcctagggg aaaagacaat tattttgtca agacagacaa
      661 gtgtactaaa tgctggaaac tcagtgtaca atcacacaaa gaaaagctac gcaagttctc
      721 cggtgcaagc ttctgaaatg acagtacctc aaaagccatc tgtgtgccag agaccttgca
      781 aaattgaacc agttgggatc caaaggtcat ataaacctga acatgcagct ctggcatcac
      841 ataacttatg tgggcaaaag ccaaccagta gagacccttg ctgtagaaca caaaacttgg
      901 aaattcgtga agtgttttca ttggccgtca gtgattaccc tcagagaatt ctgggaggaa
      961 ataccacaca gaagccaggc tcagcagaag gaacttgttt gtccattgca atggagactg
     1021 gagatgcaga ggatgaatat gccagagagg aagagctagc atcaatggga gcacagataa
     1081 caagctactc aaggttttat gaaagtggca gttcccttcg agctgagaac caaagtacaa
     1141 ctttgcctgg accaggaaga aacctgtcaa attcacaaat ggtgaatatt agagatgtgt
     1201 cagacaatgt actgtatcaa actagagact accatttgac accacggacc tcattgcata
     1261 cagcatcaag tactatgtac agcaatacta atccatcacg gagtaatttt tctccacatt
     1321 ttgtatcaac aaaccaactg aggttatcac aaaaccaaaa caattaccag atttcaggaa
     1381 acctttctgt gccttggatt acagggtgtt ctaggaaaag agcactacag gaccgcactc
     1441 aattcagtga ccgagacttg gctactctta agaagtactg ggacaatggt atgaccagcc
     1501 tgggctcagt atgtagagag aagattgaag ctgttgcaac agaattaaat gtcgactgtg
     1561 aaatagttcg gacttggatt gggaatcgaa gaagaaaata ccgtttaatg ggaattgaag
     1621 ttccacctcc aagaggaggc cctgctgatt tctctgagca gcctgagtct ggttctttgt
     1681 ctgtactcac accaggagag gaagctgggc ctgaagtagg agaggataat gacagaaatg
     1741 atgaagtgtc catctgtttg tccgaagcaa gctctcaaga ggagtccaac gaactaatcc
     1801 caaatgaggc cagggcacat aaggatgaag agcatcaggc agtatccgca gataatgtga
     1861 aaatagaaat tatcgatgat gaagaaagtg acatgataag caattctgag gtagaacaag
     1921 agaattctct cctggattat aagaacgaag aagtcagatt cattgaaaat gagttagaga
     1981 ttcagaagca aaaatacttt aagctccaga cttttgtgag aaacctgatc ctcgctatga
     2041 aagctgacga taaagagcag cagcaggcac tgctgtcaga tttacctcca gaattagaag
     2101 agatggattt cagtcatgcc tcaccagatc ctgatgatac ctcattcagt gtgtcttcat
     2161 tatcagagaa aaatgcctca gacagtttgt gattgggggt gggaaagatg atatagtctc
     2221 ttggttgcct aactggtgtg tgtttcaaga taactgtact ctgtttccca tatagtcttc
     2281 aactggaaaa acacattgtt aaaacagacg tatgctgtga aggaatgaca agatttaatg
     2341 gctacagtac aaaagaagca tgtaaaatac ttgaaatggt ttgtttttaa aacttataaa
     2401 atcctagaaa attataaatt ttgaccaact cagctatgaa atttattata tctgacttct
     2461 gaaaggtttt tttttgctta ttctttaaga agaatcttaa ttttattcag aaatatagaa
     2521 atgagcacat ctcaacatta ctaagttgct aacacttggt tagtattatt tttgtagcca
     2581 ttacatcttt cttcctactt cattttctta tgattcatat acatttttac tcaggaaagt
     2641 gggctaaaat tttaaaacag acctaatcat atatttaacc tggatgaatc ctgggattta
     2701 tttttcaact cctatgagaa tttggcctaa gataatgatt gaaaatcgaa gcaattatag
     2761 gatgtaattt taagttattg gtactcccct gacactgggg aaaggggaaa atcctctgaa
     2821 aagtcgactc atcatcaaga catttaagta cacaaagact gtactttgta aaaaacactt
     2881 ttaatctcaa ttcttgtata aagtgagtga tagtattgct gattcatatt ctaccatata
     2941 gtaaatttat ataattgagt cagacaaaat attgcacaaa tattcaagtt taccaacatt
     3001 ttcttaatat ttttcatatc ttaaaatttt tgaaacagga aatcaaagta tgccactgat
     3061 atttggttgt ttttatttaa ttctagacat acaaccttgc cacaaagttt acctcatttc
     3121 catatgaggc ctgcacagag ccaacaataa tgtcaaaaaa agaactatag tactttgatt
     3181 atagatcaaa gacctgaatc tcctggatgc tattctatga atacacaccg aaaatgggca
     3241 tggtacccag ttgttactat tagtaggtac caaatggcag cagactgtag acatcttttt
     3301 gcatctccct ttctggaata ccagatggca ttactaaggt ctgtagatgg gaaaatacta
     3361 gtttctgcct aaacttacaa tgtcatatat ttgtaactag gttgtatgga actatattac
     3421 acaattaaat tattatctat tcccaaaaga tgcttgaagc atctgtaaaa ctgtttcaat
     3481 tgtcaacttt cagataagtt tcttaactgc agctattctg gtctcagaat ttactgatac
     3541 caatttatga ttacagaaag accctcataa atccctttag ctcagaaatg tcccttctca
     3601 tcgatatata caagtaaagt tcattggtga ccattcagtt catcaaatgt ttgattttac
     3661 actgttgcca cacaacctct atggcttcct tgtcagcaga aatatttcag tagtcagcta
     3721 aacatgtcct ttaactgaga gtcatgtggt tctttgcaaa caacttttgg tattccttgc
     3781 tgacaaacca aattccattc aggggaaaga ctactgagca acagaagctc aaacattcag
     3841 attaagctct tcggtcacat aaatttctcc ataaaataag agtcctcact ctatacaaca
     3901 aataccaaat ccattatttt atgatatgga gaattaagac aaattctcca gtagctcaag
     3961 ctggccttta actcccaata tagctgagga tgacttggag ttctgctgtt cctgcctttg
     4021 tttcccaaat gccaggatgg atttctttta ttatgagcac atttatagtc tcatgtctct
     4081 ctgtgacttt ctttcgtgtc attgagtttc tctataaact taaactgctt cagtttaaga
     4141 atcttcgtag ttggttttca ttgcagagta aatcaggtga gtctttccta tgtgttttaa
     4201 cacacaaaaa tttatttttc acatcttaga aatgtgtcac tacatttaaa aatatcctta
     4261 gagttctcac tataggaaag atattgtgcc agacgctgga tttttaaata atctatggac
     4321 tataaaaaat tatttcagct gggtactagg acacatagcg ataactccag cactgtgtag
     4381 gctgaggaaa gctggcttca aaacacaaag aaacatttcc tgttaacctt tttctgtctg
     4441 ttaataaaag tttttcaaat ggcagctata attgattgaa ggattcttat agatgtgatt
     4501 cttagaaaga atcttacatc tctaattttg gaaggatgta taaactgttc tattattcct
     4561 atttaaagtt tcattcaaat agaagctatg tgtcctaaca gtctaatagg actactttta
     4621 tcctggtgta tttcttctag ccacaggatt atatctttta tgaacatagg aattaaaaca
     4681 tttaaaaatt ttaagtggca gagttctttt gttttgtttt tgtttttaaa acatttgttc
     4741 cttttattca caaaacataa gacttacccc tttgttgaat ctcttttctt tatgatttta
     4801 cacaaaggac cttgagatat atcaattata aaacatgtca aaaagaaagc atctttaaaa
     4861 gtttacaagt atgtacttat acaatccatc aatgtaaaaa agacattgga ttgaatgtaa
     4921 ggtatgttca gttgtcatta gaattatttt tgttcttttg gagacttttc tctcctctgg
     4981 tcctgacttc tctttgattc tctatctgct aggtttttcg cagtgtctct tggcaccatt
     5041 ctgacacctg ttgtcatcgt catctccttt atgaccagaa tgctttctac tcctctcccc
     5101 tggcttggag tgatcttttc ttcttatatt atcactgtct tgatttcatg ttctttgttt
     5161 ccaattttca gaaaaagaat cttcactctt gctgcttctt ccctggctca ccatgcttgt
     5221 cttctagctc tctgtgcgag ccttgttctc tttctgccat tgccaactct gctgtaacta
     5281 ttctcacggc ttctgtcctc catgggcttt gctaggggat cttgccagtc tgcatctcgt
     5341 gagttctgcg ctctgtgtct ttcagacctt gctctctcag tcctcccttt ggtcctccct
     5401 gactacttct cacctcctgt cacgtgtctg gtggcccctg gctaacttat ctactcttta
     5461 cctctggcct tctcttgtct cttctttctt gtacctttag ctgtaggagg agcagtcact
     5521 tgcttcactg gattactcta agctgctctt gctgctgtca gaatctgagt cagagggatc
     5581 agacgccaag aaagactctg aagaatggag atgtcaagat tggtttcttt tgctcagctt
     5641 ctggtttctg gactacaatc accttgggcg tatttttcag atgttctcga agttcattta
     5701 tcaaacctca gagacctatg gaagtgaaga aattgatggc aaactgggta ttatgtgggt
     5761 tgtcttggag taacagtcct tcaaataatg actgaagagt ttcatccttt aacctcgcat
     5821 tcagtttatg aagtcacatg tattcacaca gttcctggaa gaagatcttg acaaaaatcc
     5881 tactagatga tgtcacggtc tcttcactca gctttacaca ttcgagaaca ctccatggaa
     5941 ttgcatctgt atataaaagg tgagtaaaca tcttagcaat atttctcaat ttgtctctaa
     6001 gcaatgaatg ctgttggatt gtatcttgaa tatactttca aataattcca tgtattctct
     6061 tttttgcata caaaaccacc cagctaacaa gccaaaaaat ttctcatcgg tcctttgttg
     6121 ggcacagcaa tcaagtttca tgtggcagag ttcttttgtt tgggtctcag caaaatccat
     6181 tttcagcaac ttgtgtgcac attcttcaaa atctaaactt gactgaatgg taagatacat
     6241 tgtataacaa aatgagccta ggttgatttc tgttgtgtca tgaatagtta ctttttgacc
     6301 tccttcctct cctttttctt cttctttctc ttccttatat tcactacttc cagcttcttg
     6361 gtctgtgtct gaatcactgt ctccttcatc aaggatttcc ttttttttaa tagcctcaca
     6421 cttctcttca ttctccataa aaattgtgac ccatcttaaa aacattaaga ttgaagttat
     6481 ctccaaggag agcatatgtg taaactgacc gtcctcttcc actaaggcct tccagaataa
     6541 cagggcggtc cttgaatcta tccttccgta cagcaaacat cacttcgatc atgtactgaa
     6601 ctcttttgtc caccttaggc tcatgtagaa tctttcacag gcatcaaagt ttgcattgat
     6661 tcctattggt gacaactggt ttaatttgag accacattcc ttgaggaagc tgatagcttc
     6721 ttcaacactc ttcaagactg ttggtctctc tagaagcaaa gtgagcatct ccagtcacag
     6781 aacctcatgt gccacatttt ggctagtaag atgtgccaaa aattttgaag cagccaggta
     6841 gttgttatca ttcctttgat atcctttcca aaaattaaga attaatttct tgaggattaa
     6901 ttctccaatt tgtgggaatt ttgagttgat cattgccacc aaagctgcat aagcatgagt
     6961 agaagattgg agaagcactc ggtgattgca gaacagatct ggacagccat cctctccctc
     7021 tgactatgtt ctcttgaagg agctcttgga taaataatac ttatattgga gatgttgacc
     7081 ttattgagga gaacattgat tgatttcttc agggcctccc aactcatcct ctgttctgct
     7141 aagctgtttt tatctgtaac ctgttcctgc atcatcctga gctttgtcag aggaatatat
     7201 gctccccaag tgtgggtgag cagtagatcc atctcatcct tcttctatgt aggttcttcc
     7261 tgagtagaac tctgggttat tcctcagcct gggtttctca tttcaggata tggaaatttc
     7321 tgttactgtt tctgatgatc tgcagatcta tctctgcatt ttgctcagtc cctaccttgt
     7381 gatcccatgc tgctgtcatt gtaagagtat cctcttctag aaccctcatg gtctgaccag
     7441 ctgtagtcag agtagtctct atgtgtgtgt tggggcgggg gtccattctt gttctgcgta
     7501 tctgtcttct gggggaggag ctccagaggt acgagttgtg gctattcctt ctgtctccca
     7561 gaggactgtt tcacgtgtgc cacactactt ttcattttct gctgtcagct gacccaataa
     7621 accagatgcc tcaggttcat tcaagagaca tttactcaat ggtcgaggcc cttgacagtt
     7681 ttctttttct gcctccacac atcacctaca gctccaccat gctgccatca cacctgaagt
     7741 gccaaaaggc ggtgttctat agcaagacac aaaggaaata gctttgtcaa tgcaaaatca
     7801 accatctttg gcagattgaa aatatagcaa tgaccttgaa gaagtcaaga tcaagtatta
     7861 taaaatgatt atcaaattgg aacactagct tagcatgtac agaaggcccc caggttcaat
     7921 cccaagcact tcaataggaa aaccatgaaa ctactataat ggaaacattt tttatatata
     7981 tgtagtggat ttggttttga gattgttttt aaaaaacagg aaaaataata gctgctggct
     8041 gttttcatga acatatttgt tgacttgtga aaatcaacta actagcattt ccttgacagt
     8101 attaaaaaca ttttatacta ccagaagtat cactccgaga agcagaagta aatgggaaat
     8161 tttttcctac ttttacttgc atttaaatgc ttaactttag gatatcaagg actttctaat
     8221 gtttatctga gagtagttat gttctaaaat gcaagttaaa agtgcaacgc tgaaactaca
     8281 ataacaacaa aaagaaggta ccttcctcat tcagtgaagc taaaattagt tgcaagaaat
     8341 gaaaattgca gttgccctgg agaataggaa aattaacaca tgcaaagaaa atgttaaaag
     8401 aaaattggcc tgtttaggga acctggggat gttttgttgt aaggtcagtt atcaacagga
     8461 cttttccaca gcaacagtaa gcagtgtatg aaatgtttgt tactattgga gaagaaaatg
     8521 ctgtggccca ctcacatcct gtgttcagta tattgttaat atcgggacct caaaaaatgt
     8581 ccaagagctt atttctacaa agacagagac agcttctttt agggcccttt tattagggag
     8641 tcttaccagt ttgtaagaga aatgttaagt ggcctatata aacagacact gattgatcaa
     8701 aatgactttg tctccctttt tgtggagggt tgttcagcca cttagcctga ttgtttataa
     8761 tcacctttga acgaaatcct gaaaatgtta actgctgcct tttatccagg aggtagtgat
     8821 gaaataccag gaatggtgtg tccttttaac aaaatttatt tttaatcaca tcccccgaat
     8881 ttaaaaaaaa aagtttttgt gctttgaagt gttacctgtg ccactgtttc taaatggtgg
     8941 ctagatttgt ttttaagttg ttgttaacct tgacagacag cactgtgcca tgccctttgc
     9001 caagttctgc tttataatgc tctaatgaga agcctactaa cttgtgaacc tacagttgac
     9061 ataaacaagc ctttattaag aacagatttg ccaaggggtg gaagaagaaa gggatatttt
     9121 catgctaata caattatgat tgttccatta aattgtatac tgggtatatt ttgttcttca
     9181 ttgaaatttt attttgcatt aacttactga gtaattccat ttagcaatcc tgcatcccat
     9241 tttactggta ctacctctga aacatattat ctccttaaaa ccatatcaga ttgtaatgtg
     9301 aatttttgta gagtttttat ttaaactttt atagaggcaa taaatgattt ccaactaaca
//
