LOCUS       XM_039082823           11135 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus RAR-related orphan receptor A (Rora),
            transcript variant X1, mRNA.
ACCESSION   XM_039082823
VERSION     XM_039082823.1
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_051343.1) annotated using gene prediction method: Gnomon,
            supported by EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            [WARNING] On Jan 19, 2024 this sequence was replaced by
            NM_001427367.1.
            
            ##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..11135
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="8"
                     /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..11135
                     /gene="Rora"
                     /note="RAR-related orphan receptor A; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 41
                     ESTs, 2 long SRA reads, 32 Proteins, and 100% coverage of
                     the annotated genomic feature by RNAseq alignments,
                     including 33 samples with support for all annotated
                     introns"
                     /db_xref="GeneID:300807"
                     /db_xref="RGD:1308419"
     CDS             99..1670
                     /gene="Rora"
                     /codon_start=1
                     /product="nuclear receptor ROR-alpha isoform X1"
                     /protein_id="XP_038938751.1"
                     /db_xref="GeneID:300807"
                     /db_xref="RGD:1308419"
                     /translation="MESAPAAPDPAASEPGSSGSEAAAGSRETPLTQDAGRKSEAPGA
                     GRRQSYASSSRGISVTKKTHTSQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQ
                     SNATYSCPRQKNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKFGRMSKKQRDSLYAEV
                     QKHRMQQQQRDHQQQPGEAEPLTPTYNISANGLTELHDDLSTYMDGHTPEGSKADSAV
                     SSFYLDIQPSPDQSGLDINGIKPEPICDYTPASGFFPYCSFTNGETSPTVSMAELEHL
                     AQNISKSHLETCQYLREELQQITWQTFLQEEIENYQNKQREVMWQLCAIKITEAIQYV
                     VEFAKRIDGFMELCQNDQIVLLKAGSLEVVFIRMCRAFDSQNNTVYFDGKYASPDVFK
                     SLGCEDFISFVFEFGKSLCSMHLTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQ
                     LALQHVLQKNHREDGILTKLICKVSTLRALCGRHTEKLMAFKAIYPDIVRLHFPPLYK
                     ELFTSEFEPAMQIDG"
ORIGIN      
        1 tttttttttt tggtaccata gagtcgctct gaaaacagaa gatagaggga gtctcggagc
       61 tcgccatctc cgccgatctc tacattggga aaaaaaacat ggagtcagct ccggcagccc
      121 ccgaccccgc cgccagcgag ccgggcagca gcggctcgga ggcggccgcc ggctccaggg
      181 agaccccgtt gacccaggac gcgggccgca agagcgaggc accgggcgcg gggcgcaggc
      241 agagctatgc gagctccagc cgaggtatct cagtcacgaa gaagacacac acatctcaaa
      301 ttgaaattat tccatgcaag atctgtggag acaaatcgtc aggaatccat tatggtgtca
      361 ttacgtgtga aggctgcaag ggctttttca ggagaagtca gcagagcaat gccacctact
      421 cctgtcctcg gcagaagaac tgtttgatcg ataggaccag cagaaaccgc tgccagcact
      481 gccggctgca gaagtgcctg gctgtgggga tgtctcgaga tgctgtcaag tttggccgga
      541 tgtccaagaa gcaaagagac agcctgtacg ccgaggtgca gaagcaccgg atgcagcagc
      601 agcagcgaga ccaccagcag caacctgggg aggctgagcc gctgacgccc acctacaaca
      661 tctcagccaa tgggctgacg gaactgcatg atgacctcag cacctacatg gacggccaca
      721 cccccgaggg cagcaaggcc gactcagctg tcagcagctt ctacctggac atccagccct
      781 ccccagacca gtcgggactg gacatcaatg ggatcaaacc cgaacccata tgtgactaca
      841 caccagcatc tggcttcttc ccctactgtt ccttcaccaa cggagagact tccccaaccg
      901 tgtccatggc ggaactagaa caccttgcac agaacatatc caaatcgcac ctggaaacct
      961 gccaatactt gcgggaagag ctccagcaga taacgtggca gaccttcctg caggaggaga
     1021 ttgagaacta ccagaacaag cagagagagg tgatgtggca gttgtgtgct atcaagatta
     1081 cagaagctat ccagtatgtg gtggagttcg ccaaacgcat cgacgggttt atggagctgt
     1141 gtcaaaatga tcaaattgtg cttctaaaag caggctctct agaggtggtg tttattagga
     1201 tgtgccgtgc ctttgactct cagaacaaca ccgtgtactt tgatgggaag tatgctagcc
     1261 ccgatgtctt caaatcctta ggttgtgaag acttcattag ctttgtgttt gaatttggga
     1321 agagtttgtg ttctatgcat ctgactgaag acgaaatcgc attgttttct gcatttgtac
     1381 tgatgtcagc agatcgctcc tggcttcagg aaaaggtaaa aatagaaaaa ctgcaacaga
     1441 aaattcagct agcccttcaa catgtccttc agaagaacca ccgagaagat ggaattctaa
     1501 caaagctaat atgcaaggtg tctacgttaa gagccctatg cggacgacat acagaaaagc
     1561 taatggcatt taaagcaata tacccagaca ttgtgcgact ccattttcct ccgttataca
     1621 aggaattgtt cacttcagaa tttgagccag caatgcaaat cgatgggtaa atgtagcgcc
     1681 cgggcacttc tagaacatct ggagtacaaa caggaaagta agagaaaaat aagagaggaa
     1741 ataaaacagt aacaacgaag acaaatttac ctgagacact ttctatggcc ctgcacagcc
     1801 ctggagcgcc aacacactgc acagacatct tgtggtgacc ggggttcagg cacaaagggg
     1861 aaacaatcaa aaccaataaa agctgaactt gttttgctca cgcatatgat ttccactatg
     1921 cctacagatg tggacccttt ttctgtctca acttctagag cggttgacct cggcatataa
     1981 caggaggagg gtactacggt cggaggagcc ccttttctta cagctcactg cccacagact
     2041 tacgggtaac agcagagtcc agcgttaatc ggtgaccccg gtgtgtatgg ccagagttac
     2101 ggcgttactt tgcacagctt gcttttctgt gtcatgaagg aagatttttt tgtttctctc
     2161 accgattatt gccggtcagc aggatggcgt ggaaaggggc tccataagcg ctcgcaacaa
     2221 tagcattata atatattaca cagggtaaat gggcatgaag actatatata gctaaagaga
     2281 tattgtttat atattgtttt aattaatata aaatgtagtg actggcgtag cttttcctgt
     2341 tgaattgata aggcactttc cgtttgcacc tttttgtttt cctttaaatt aaatgctagc
     2401 gtgttcactg tcgccgtgtc gcatgtacac cagaaacaca agtttagctg agaaggcttg
     2461 gaaggaacgt cgggaggtat ttatgctgct gtttacaaaa aaagaaacaa aaacaaaaaa
     2521 attactttta aaagactggc tggtcatatc cagaaatgaa catgttggat tttttttccc
     2581 cacctgtaaa tttggaatta gtaagggact gctccctaaa ccacacttcg ttgtgcatgc
     2641 agttgagaat gggtgtgttt acgcttcatc cagagttgaa ggagtgtctg gtgctgtggg
     2701 gcttaaacca tgtgtgcatt tttatttatt ttattttttt tcttaagttt ttaaaatgct
     2761 acctttggga gggaaaggag gagaggctca cttaagtcag tagtcacagg gacatagcat
     2821 caacttgcag ttctgatgct ttcaaattag cagccagaat atttactgga ttccagctct
     2881 tatttagaag gaggacccaa agattctacc tggagcagac acacacccaa catgaagcat
     2941 tcgttgaatg tcttgtgttc ttggcattgg gagccctaag aagtcacctc agggtaaacc
     3001 gaccctagat taactgtccc agttctagac tgctgttctc tattttgggg agatggtgga
     3061 tgaagaggga gggagacagt gttgaaccta gttctgtgtt taagatctgc ctcccgagtg
     3121 gaggcagtgc cagctgcaga catttgtgta ccttactaga aaactgtgga ctgtaactta
     3181 ttttattaaa tatataaaga tagtttggct tttgtgttca ggtagaagtg ttgaggtatt
     3241 gattcatttt gcattttttt aaaaaaagat aatccccagt ggaaggagga aggagctttc
     3301 ttatgttcat aggtatgcat attttaagac caagtgccct gggattacag agatgatggt
     3361 tcagtggtca agagtgctta ttgctctatc agaggaccaa agcctggaac ccagcaagca
     3421 gatcaggcac ctcacaaaag cctgtcactc cagccccaag atttcagtgt ccccttctgg
     3481 cctctgtgga cacatgtgta tacacacata cacgcacatg cacacacacg tgcccgcaca
     3541 tgaacacgtg cactcacgca cacgtgtaca cacgtacacg tacacgtaca cacacacaca
     3601 cacacacaca cacagagtaa gagaaaaacg taaaaaagaa attcttaaaa ccaagtgctc
     3661 ttttgagaat ttaggcattt aggagatgac tttggtcaca agatactggt ctgacatcaa
     3721 agaccatatc tgtagaaaaa aaaaagggac atcttccatg gcacaaggaa cagggggcac
     3781 ttttatgaac acccagatgc ttgctctgcc aatagggtcc tccttgactc ctttgttatc
     3841 atttctgctc ctgctgatgt ccgtctgatg ggttcccagg gccagcttcc cagagcactt
     3901 cacaatcttt aacttcactg actttctgcc ttatttactg agggacttgg aaagtaggaa
     3961 ggaattattt gtacagaaac gtgtggggga agcctaaata acatctaatt ttttttcaaa
     4021 aacatagtaa gggtttaacc ataaacaggg gagtgatatt tacttaaatt tcttacaagc
     4081 atagaaaatt ttatgtgttt atatggagag gttagtggtc agcatatagt atttatattt
     4141 gggcaagaag gggtaaatca aaattttatt taaacatagt tcctttaaag attaatagta
     4201 tttatatttt gaaaagagta cggttttgtt atttatttgc cctttttctg tcgtttctcc
     4261 tgtgtgaggg aatggtgtga ggtttgggtt tgggttttgt ttttcctttc ttgtttagtc
     4321 agattcacta aatttgggga tagatttagt aaagtatatt aacttcattt taaccaaagc
     4381 tttctgcata tgaccagcct caggtgctat cgcactaaag agcaactgaa cccaatccca
     4441 gtgtccatgt gtgtgactaa ggagagctgg ctgagcgtct ctaagggtgt gagaaagaga
     4501 gcgagagcgt gatcttgaac ttcagagaaa ttcattttcc caggaaggat tctgtatgta
     4561 cctaatgcag acacaaacac aagatactct aatctcagta ctgtgccatg gtgacattgc
     4621 tttacaacac accaggagag agcagcatga tggcttctgg gaggggtgga gctggagagc
     4681 caggcatgct ctgaggaact gagaggacaa ctgactagga cttgtaccta agttgagtcc
     4741 cagggagtcc agaacaggat gtaaaacttt ggcatttctt ttcttcttcc tgatcgtgta
     4801 gtgccaccag gcggttgatg gcacaggatc ttgaggcttt gttgttcatg tcattaaagt
     4861 tgcctgagct taaaaggctc cccagcctcc tggggactga accttattgt ccgctcggct
     4921 gcaagagcac catcaggtaa ccttttccta tagaaggtga atgatgcttc tgtacagaat
     4981 ccgaatgttg ttactgtgat atgcaaacaa tctaggacat cgtgagaaac aggccttggc
     5041 cacagagaaa cccaaagtgc agtggaaagc actttttgga cagaccatag attgtgctat
     5101 ggctatgagt ttgggtgttt tgttttgttt tgttttgaaa gcactcagta ttctaatttg
     5161 tgttaaatgg atttgttttt ccccaaagtc tttaacatcc tgattcaccc ttcctaactt
     5221 aggaaaacat gacttaagac actgcttcta agtttggttg ttctttagcc agtggatacc
     5281 agatctctgt gagtggatag gggtgggctg agggtcaggg gaggaaggag catgtttgcc
     5341 tgtgtgtgtg tgtgtgtgtg tgtgtgtgtg tgtgtgtgtg tgtgtgtgtc ttttgtgtgt
     5401 atgaagtgtg tatgttagac cgcttctagg ctactaagtg tcaatggaaa agaaaatgta
     5461 ttcaaaatgc ataaatcaaa actagaagat ggaaaaaaat gatttattct atacaaagcc
     5521 ttgtctggac cactctagag agacttctat ttttttaacc cttctataaa tatttgatgg
     5581 cactagaaat attcctgcaa taaaatgtga tttgtgtaaa gaaaaaaaaa gattttgtaa
     5641 tgtgaaacaa agaaagaaag taatgtaatt ttctaaaaaa aaaaatacaa acaaacaaac
     5701 tttgtattat tttcttgatg gaatttgcct atctgtcttt ggaaaacttt ttatttcatt
     5761 gaatgtgcca tagtagatgt acgtggtttt tttttgttgt agactaaggg atggctgttt
     5821 gtgttccgac attccaaaat gcaaagcaac ttagcagaag ccttgctgag gtggtttccg
     5881 taggatgcaa gcgtctctcc tgttgcttgt ttgcacacgt cttttaattc ttacctagtg
     5941 caatatctgt acatagagca cttgccggtg tactttgatc cctcagggaa aaacacatat
     6001 ttgtacagtt gttgggttcg ttttggtttt tttttttttt gttttttggt tttttgttag
     6061 tttgtttttt tgacttattt tccttctctc tctctttttt tttttttttt ttttttggct
     6121 acggaatgtc gatcgaatca cttgttattg ttgagaggca gccagataat cagcctaaag
     6181 ccactgtttc aaacaccgat tgtttgagtc atgtctttcc agtactatta ttttaaaatg
     6241 ataataataa taataataat aaaaagctat tttctgacag ttctttgtgc tgactggtgg
     6301 aacacaaaag ggtaaataat aataatgatg atgatgataa gcaccttatg gttgacttac
     6361 tgtgaatgac aatccatctt ggtgtcaagg acagagccct gttgtctgga gtgggggctg
     6421 agagtcagaa acactgtgct cagggaactt ctaaaactct taaaacaggg tggccagtgg
     6481 actgggacaa attgtggttt tactattaaa aacaacgatg gtaacagtat ccctccaagg
     6541 cacaagcgaa ctgtagagaa gtgtctgtct gtctgtctgt ctgtctgtct gtctgtgtga
     6601 attcttcact gtctcatctt gttgagttca aaattcccgt gtttcaaaac acgttaactc
     6661 ctgaggctgt gtgaatggaa gatgaatccg ggagtgacag cctgtctgct gtcccctcat
     6721 aattcaaatg ctcctgtgaa actcatctgt aaacaatttc acattctatg tgttatgaat
     6781 ttaaatgttt ttaaaccagc aggaagacct acctatcagt gcagtggccc acaacagagt
     6841 ccttcagcgc tagaaaacag aggggtattt cactgtattc tccaggggca aaccaaaccc
     6901 ccattgtgca aaacaatccc tattctgcat ccctagcatt tttgatttgt ggtggtgggg
     6961 gttgtttgtt ttcctgaaga gctgccattt aaagacaaat ttgtccctgc gtggcatagc
     7021 tttaatttaa gggagtctca gctcagaacc acagttagtt cagacggtcc catacaccac
     7081 tttccataaa gccaaagaag ctcattgtaa ctaatggttc tgagcctctt gccccatagc
     7141 acacacttgg cagaattaca tagcttctta ctacagtaag caaacttgag gtatgggaaa
     7201 tctgtccatc aggtgacagt gatacctcac accttgtttt gagtgtaggt gacagaaacc
     7261 tccctcttcc ccctttatct cccatacatg catacacatg catgtgatag acattcttat
     7321 acaccatcac agggccacta acaactcaaa aagctgtggt atagaaccct acaacagcgg
     7381 ccttgtactg tggatcacat atgtgcccag aaatgcagct gccacaatca aattctggtc
     7441 aacggttgct gtctgtcatg ctggtccttg ctgtattccc taaacactaa tgcatgaaat
     7501 gcttccatcg gctctgatga tagggaccat cccactgctg tttaactaac gcaaagacca
     7561 gctatcagtg tcttcaaaag cgattggctg cacttctgtg tgtgtctgcg cgtgtgcgca
     7621 agccctgcac ctgtacgtgc ttgtatgtga tcagtctgtc agactctcaa attattattt
     7681 ttttaaacaa gcaggaagac tggcttcata ccaggaagcc accatgaatg ggggcagagc
     7741 atgctcgacc acagcctcag aacttagagc aataaacact attcgagtcg cttacttact
     7801 tgtaaatggg tgacagaata tttgatccaa atagaaacct tttcccaggg tctagtgtgg
     7861 agagtggaga tgaatgtttg gaagagatcc gtgttctctg tttacatcca gtgtgttttg
     7921 ccacatgagc tgtccctatg ctttttcttt ggtccttcta gaagctaatg ccagccagat
     7981 agcggtttgg ctttatgggc tgtgcgtgtc cttgcattgt tcccctagaa cagcaggctt
     8041 ctctccagtg ttcctgtgtg agccctctca ttcattatga cttgtgtgga ggagtaacta
     8101 ataagatcat aatcactcaa cacagtacac agataaatgc agatacttct tgagcaatat
     8161 agtgactatg acttcataca cacacacaca cacacacaca cacacacaca cacacacaca
     8221 cacaatctgt acgtactgta cacatcttcc tgaatcccca agtctctgct tcatcataat
     8281 ggtttgaaat ctcatctaca acagtggtgg ctgctttaga cagtaggaca ttagctggct
     8341 gcttctttaa gtgtacctgt attatctgcg tgcttcttta agtgtacctg tactgtctgc
     8401 gtgctccttt tgcggagaca agtttttgta ttggatgttt gggccaatgg gaggcttcaa
     8461 gctacaacat attttcccag tttaaatata ttgaacttat gacaaacccc agacaaggct
     8521 tttaatctgt aaagaactgc agtgttgggt ggtttattta caaaccgttt tcaatgttgt
     8581 ccatttttat ggcaccttta acaatatact tgtttccaaa gtacaaaaaa aaataggtta
     8641 aataatctag ccataactga atgtcaagca ataaaacaga cgacttttgt gcatagactt
     8701 taaaaactac aaattttaga catctgcatg taaatgcaat ctcttgttta ctgctttctt
     8761 caactcaagc aacagattcc ttatttacta ttaacttaag aactggtaac ggcctgtaca
     8821 cattttctct cctactcttc tttcaaattt accttcaccc tgcttttgag tcgtaatatt
     8881 taatgttgtt ctgcacacct ctatacagtt aactttctgg cttttgttct gtatagataa
     8941 gaagatgtta tattataaac agcctactca gtgcaaatat ttatctgttt atcaaatcca
     9001 caatatgctg tgtaatactg gttttcctat ataatctatt ttagacatag ctgtttagaa
     9061 ctagagtgtg ctatttttgt gtttttctga tgtgtggtgc tagataagtt acttttgtga
     9121 acaaaaaaaa atccctttta ttcctagaca aaaccacctt tgggtcttgt taatttcact
     9181 gagtataact atatatttgt atatatatac atatatatat atctatatat atatctacct
     9241 gtacccaact ggcaactgta tcagagtgct agatttggga catgcttttc tctttaaata
     9301 cataatatca ttatataaat tattctagag tgtatttaat taggataaaa ttacttcctt
     9361 agtgtggata tttgacatgt tgggtaaatt tgttcataaa tatagacatg gaaaactgtt
     9421 accatttatt tcagtgtgtt gctcagctca tcacatctcc tgagctgaaa aataatttga
     9481 cgggccttga tcccaaagca acaatcttgt tcagtggaga aatcctttct tcccttactg
     9541 ggaactctgt aattggcacc tgactggact gtacatttaa cttctcgtat agataatatg
     9601 tggaatattc atggaagatt gctaggaccc taggccattc acctcatctg agtcacaaga
     9661 tgtataagca tatacattgg gataaatgta aattcaacaa gggacgatgt tctaatatga
     9721 caaccagttc tgtgaactga gtggaggacc tttgctttaa aacttgttta atgatgagct
     9781 gagtaaacac tctgacatct ttccccaaga gtgattggca ttgttaaagt tgtacatcaa
     9841 atagctcact aaggatgtaa ttagccttct taaatattga ttagaattgt tctgtaatat
     9901 tactgaattt gtaagatctt tagcaaagat ttttgagcaa tttataaaca tagagcaaac
     9961 gtttctgttt attgcacttt ttgtaactga aggtgataat ttctcaagtc acaattagtg
    10021 aaccccatgc atcccactgc atccttaccc accatgctgg acagtctcca tttttattgc
    10081 tatccccttg gtttttcaat gcaatcaggt ggttaaagaa agttgatgag aacaattgac
    10141 tttttaaagt gaatttgtta caatttagag agaaatctct tttaatgcaa tcatgccatt
    10201 ccttaactgt ctagcttgaa gagagattga aacttttgtt tgattgatgg atggatcgat
    10261 tgactggttt gtttgttttt ttttttgttt tttgtttttt tgtttttttg cacagtttag
    10321 tatcccaagc ttccctaggg cagtgatttt tctctctttg tacttgcaca tggccagcaa
    10381 atgtcaacac tagataactg tttaaaatga caggtgtgcc cacaactaaa acactcccca
    10441 aaccagggtg tttttggcaa acggatcaag catgcaatgt cttacagtta accattataa
    10501 acaagtctaa gagtcacact gtcctcctgg aggacatgaa acgctgagtc tacttgtgtg
    10561 tgggtctcca ggatccagca cacaaatgtc acacaactct acgagtgaca agactggcct
    10621 gctgtgcata gtcatgaaag tctggaagca gcgatgctga gcctgtagct aagacgctgt
    10681 ctcttctgtg tacaggatgt aaagcttctt tctctgtcac actagaaatg caaaccattt
    10741 acgggattcc taagaaccat aatatggacc taaactttgc taatgatctt tcctagaggc
    10801 tcatcccact tttcactgac attgggtttt cttttcacag tcctctctct acagtcgtag
    10861 atcgcttatt cccagctgtt tattttattg agtcctgaat ttaaagaaaa aatattttga
    10921 ttcattttgt aaatacaagc tgtaaaaaaa aagagagatt taatgttgtc ttttaaatac
    10981 tccaattttc attctaatat ggatgttgtt atattgtact tagaaactgt acctttaaca
    11041 ttacagtacc tttattaaaa gtgcattgaa cacatcaatt ttagatgtgc tttgtgtgct
    11101 attatcctat aataaaactt cagcttctaa tggaa
//
