LOCUS       XM_039098287            6569 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus TAR (HIV-1) RNA binding protein 1
            (Tarbp1), mRNA.
ACCESSION   XM_039098287
VERSION     XM_039098287.1
DBLINK      BioProject: PRJNA677964
KEYWORDS    RefSeq; corrected model.
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_051354.1) annotated using gene prediction method: Gnomon,
            supported by EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            [WARNING] On Feb 22, 2024 this sequence was replaced by
            XM_039098287.2.
            
            ##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##
            
            ##RefSeq-Attributes-START##
            frameshifts :: corrected 2 indels
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-849               JACYVU010000314.1  2861636-2862484     c
            850-947             JACYVU010000314.1  2858472-2858569     c
            948-1017            JACYVU010000314.1  2857104-2857173     c
            1018-1167           JACYVU010000314.1  2853714-2853863     c
            1168-1199           JACYVU010000314.1  2852330-2852361     c
            1200-1225           JACYVU010000314.1  2852303-2852328     c
            1226-1256           JACYVU010000314.1  2850076-2850106     c
            1257-1323           JACYVU010000314.1  2850008-2850074     c
            1324-1459           JACYVU010000314.1  2847251-2847386     c
            1460-1556           JACYVU010000314.1  2845215-2845311     c
            1557-1646           JACYVU010000314.1  2843669-2843758     c
            1647-1782           JACYVU010000314.1  2843266-2843401     c
            1783-1879           JACYVU010000314.1  2840685-2840781     c
            1880-2052           JACYVU010000314.1  2839642-2839814     c
            2053-2150           JACYVU010000314.1  2839077-2839174     c
            2151-2312           JACYVU010000314.1  2837561-2837722     c
            2313-2527           JACYVU010000314.1  2835186-2835400     c
            2528-2789           JACYVU010000314.1  2834350-2834611     c
            2790-2978           JACYVU010000314.1  2834072-2834260     c
            2979-3169           JACYVU010000314.1  2831712-2831902     c
            3170-3241           JACYVU010000314.1  2831507-2831578     c
            3242-3362           JACYVU010000314.1  2828536-2828656     c
            3363-3473           JACYVU010000314.1  2826786-2826896     c
            3474-3623           JACYVU010000314.1  2824505-2824654     c
            3624-3710           JACYVU010000314.1  2822581-2822667     c
            3711-3907           JACYVU010000314.1  2821013-2821209     c
            3908-3989           JACYVU010000314.1  2818172-2818253     c
            3990-4161           JACYVU010000314.1  2816246-2816417     c
            4162-4353           JACYVU010000314.1  2814580-2814771     c
            4354-4478           JACYVU010000314.1  2814338-2814462     c
            4479-4615           JACYVU010000314.1  2813881-2814017     c
            4616-6569           JACYVU010000314.1  2811459-2813412     c
FEATURES             Location/Qualifiers
     source          1..6569
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="19"
                     /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..6569
                     /gene="Tarbp1"
                     /note="TAR (HIV-1) RNA binding protein 1; The sequence of
                     the model RefSeq transcript was modified relative to its
                     source genomic sequence to represent the inferred CDS:
                     deleted 2 bases in 2 codons; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 13
                     ESTs, 2 Proteins, and 98% coverage of the annotated
                     genomic feature by RNAseq alignments"
                     /db_xref="GeneID:679346"
                     /db_xref="RGD:1589526"
     CDS             39..4784
                     /gene="Tarbp1"
                     /note="The sequence of the model RefSeq protein was
                     modified relative to its source genomic sequence to
                     represent the inferred CDS: deleted 2 bases in 2 codons"
                     /codon_start=1
                     /product="LOW QUALITY PROTEIN: probable methyltransferase
                     TARBP1"
                     /protein_id="XP_038954215.1"
                     /db_xref="GeneID:679346"
                     /db_xref="RGD:1589526"
                     /translation="MERVLVDALLTQSREPCALLGALCGGEASAERAETLRLVLQRLE
                     ERGAGVGALAKAAHEVARGHLVPLLYVSQGGGPASPRVLRAASAALRSCARLAGPELA
                     VTLAEEALRGLPGAPAVELLAAVAPCLRASEDAPLLRCLARASVELALAGDAPPAVGA
                     RLLPALAQSAEPALRAAWDALSSVEPGAEGSTGPELLVLCALAEKLLPKPEHHGDFDA
                     RLCGRFWRTVQAGMSRAQDALTRKRARYLLQRAVQVSAELAVDCTCDPQDTKGPSLFW
                     WSKKKKDELLKFWENYILIMEVLEGNQIHVIKPVLPKLNSLFEYAVSEENGCWFFHPS
                     WHTCVYRRMFEGENKILAKEGVTHFLELYEVKSLPYSPELLRVYYLHGPLMDALSESC
                     LYSRSPGQPLGSGSPLGLKLQKFLVAYVSLLPEETKSHFLLKFIQRMADRHWCAVPVL
                     FLSKALASLPSCKALGGEGLLALRDVLQCTMITHQVLLRGAAQCYLLQAAMRLVDVEK
                     VSLSDVSAFLMSLRQEESLGRGTQLWTELCDWLCVNERYFKQSSIGGSDGHEASLNAY
                     VKNLVQEFVKSPGWEKESSFVPDWLEARLTALMVLLAVDVKGIKTKFREKQRTQNVLR
                     IFLDPWLDALGKLGTNAYMPLLRTDRCLQLLVRLLHSCVPRGSSAQDDEVSAALWASV
                     MSAAESVSQFVLRRLTMNELQDVADLDRCQLYLTVLAELVSLQVKLGWKAGNPVSRVI
                     SPLRNACVHHLQEAEGRQEPTLSHQVQTAVSMATLAALCEAEDRHPVLQPDSSSAEAV
                     DRFLSALPLNRMLQKPHSEGQSIGVCPLENGSVFEESSSSQGWGKVVAQYLHDQWVCL
                     SFLLRKHQGLIPATESDVLKCCLPAVEMPVPTLQSALDVLTVLPAGLVLPVFHCMEVL
                     VPKLLTSEETLCIESFDVAWKMISSLSNTQLTFWPNLKAFVHFVFNNEILTIAAKLKG
                     PAYDKIKEIMCKMIEMSSIKSGVFNILICYCCQSWLAAASGVAQGSFSSAKDYSELVL
                     EACVFGTVFRRDQRLIQDVQTFIENLGQGCAANIILENTKREDYYVRICVIKFLCLLD
                     GSDVSHKLFLEDLAVKLLDKDESASRSRTRYHENSLQHRVKNRVWQTLLVLFPAFDQN
                     FLHGIIDKVFHAGFTNNQASIKYFIEWLIILILHKFPEFLPKFWACFSYGEEKIKTSI
                     CTFLSVLSHLDIIVQNIPEKKLVLKQALTVALQWCLSHNFSVRLYALVALKKAWHLCK
                     ALQFEECGAWTTVIECSLSQAESMHGAGNARKNWQRIQDHFFFSTFHPLKDYSLETIF
                     YTFPRLSGVTEEEWIALEKFANFTDIPSNVGSQWYLSGITLGELSPGDWSQQDQGSTL
                     GEADSQSEWADVQKKIIPWGHSALDSDLELEFQDRAAKLGKSISRLIVVASLIDKPTN
                     LGGLCRTCEVFGAAVLVVGSLQCVSDRQFQHLSVSAEQWLPLVEVRPSQLVDYLQQKK
                     AEGYTVIGVEQTAQSSDLAQYRFPEKSLLLLGNEREGIPVNLIQQLDVCVEIPQQGII
                     RSLNVHVSGALLIWEYTRQQLLGCAGPPS"
ORIGIN      
        1 gtggccggcg cacgcgcaca gggtctactc cccgcgaaat ggagcgagtg ttggtagacg
       61 cacttctaac gcagagtcgg gagccctgcg cgttgctggg cgcgctgtgc ggcggggagg
      121 cgagtgcgga gcgggcggag accctgcgcc tggtgctgca gcggctggag gagcgcggcg
      181 cgggtgtcgg cgcgctggcc aaggcggcac acgaggtggc caggggccac ctggtgccct
      241 tactctacgt gtcacagggc ggagggcctg cgagtccccg cgtgctccga gcggcgagtg
      301 cagcgctgcg ctcgtgcgcg cgcctggcag gtcccgagct ggcggtcact ttggccgaag
      361 aagcgctgcg cgggctgccg ggcgcgccgg ccgtggagct gctggctgct gtggcgccgt
      421 gtctgcgcgc gtcagaggat gccccgctgc tgcgttgcct ggcgcgcgcg tctgtggagc
      481 tggcgctggc cggggacgcg ccgccggcgg tgggagcgcg cctactgccg gcgctggcac
      541 agagcgcaga acccgctctg cgggcggcgt gggacgcgct gagctctgtg gagcccggag
      601 ctgaaggcag cactgggcca gagctgctgg tgctgtgcgc attggccgag aagctgctcc
      661 ccaagcctga gcaccacggg gacttcgacg cccgtctctg cggccgcttc tggagaactg
      721 tacaagcggg gatgagtcgc gcgcaggacg cgctcacgcg caagcgcgcg cgctacctgc
      781 tgcagagggc tgtacaggtg tctgcagagc tggcggtgga ctgcacctgc gatccccagg
      841 acacaaaggg tccgagccta ttctggtggt ctaagaagaa aaaagacgag ctcctaaagt
      901 tttgggaaaa ctatatcttg atcatggaag ttttagaagg aaaccagata catgtcataa
      961 agccagtctt accaaagcta aacagtctgt ttgaatacgc agtatcagaa gagaatggct
     1021 gctggttctt tcacccctcc tggcacacgt gcgtctatag aagaatgttt gaaggcgaga
     1081 ataagattct ggccaaagaa ggcgtgaccc acttcttgga gctgtatgaa gtgaaatcgc
     1141 ttccttattc tccggaactc ctcagagttt attacttaca tggcccgctg atggatgccc
     1201 tctcagagag ctgtctgtac agcaggtccc cagggcagcc gttgggaagt ggctctcccc
     1261 tggggttaaa gctgcagaag tttctagtcg cttacgtttc cctccttcca gaagaaacaa
     1321 agagtcattt cctgttaaag ttcatccaga ggatggcaga cagacattgg tgtgccgtgc
     1381 cggttttgtt cctgtccaag gctttggcaa gcctgcccag ctgtaaggcc ctgggtggag
     1441 aagggcttct tgccctcagg gatgttctcc agtgcaccat gatcacacac caagtcctct
     1501 tgaggggagc agcgcagtgt tatcttcttc aggcagccat gcgtctggtg gacgtggaga
     1561 aagtgtctct ttctgacgtc tcagcttttc tcatgtctct gagacaagag gagtccttgg
     1621 gacgtgggac ccagctgtgg acagagctct gtgactggct atgtgtcaat gaaagatact
     1681 ttaagcagtc ctccattggt ggctctgatg gacacgaggc atcgttaaat gcttatgtga
     1741 agaacctagt tcaggagttc gtgaagtctc ctggttggga aaaagaaagt agcttcgtgc
     1801 cagactggct ggaagccagg ctgacggcgc tgatggtcct gctggctgtg gacgtgaaag
     1861 gaataaagac caaattcagg gagaagcaga ggactcagaa cgtgttaagg atcttcttag
     1921 acccctggct ggatgcccta gggaagctcg gcaccaacgc ctacatgccc ttgctgagga
     1981 ctgaccggtg cctccagctg ctggtgaggc tgctgcattc ttgtgtgcca agaggttcca
     2041 gtgcccagga tgatgaggta tcggctgctc tctgggcctc cgtcatgtct gccgcagaga
     2101 gcgtgtctca gttcgtgctc aggagactta ccatgaacga gctgcaggac gtggcagacc
     2161 tggaccgctg ccagctatac ctgacggtgt tggccgagct cgtgagtctc caggttaagc
     2221 tgggctggaa agcaggcaac cccgttagcc gagtcatttc tcctttgaga aacgcatgtg
     2281 ttcaccatct gcaggaggct gagggcagac aggagccaac cctgagtcat caggtgcaga
     2341 cagcagtcag catggccacc ctggcagctc tgtgtgaggc cgaggaccgg cacccagtgc
     2401 tgcagcctga ttcttccagt gctgaggccg tggacaggtt cctgtcagct cttccactca
     2461 atcgcatgct gcagaagccc cattcagagg ggcagagcat cggtgtgtgt cccctggaga
     2521 acggcagtgt ctttgaagaa tcatcgtctt ctcaaggatg ggggaaagta gtcgcacagt
     2581 atctgcatga tcagtgggtc tgcctctcct tcctgctgag aaagcaccaa gggcttattc
     2641 cagccacaga gagtgacgtg ctgaagtgct gtctccctgc tgttgagatg cccgtgccga
     2701 ccctgcagtc agcgctggac gtcctcacgg tcctccctgc tggcctcgtc ttacctgtgt
     2761 tccactgcat ggaggttctg gttcccaagc tcctgacctc tgaggagacg ctctgcatag
     2821 aatcctttga cgtggcttgg aaaatgatat cttccttgag caacacacag ctgacgttct
     2881 ggcctaattt gaaagctttt gttcactttg ttttcaataa cgagattctt accattgctg
     2941 caaaactcaa gggcccggca tacgacaaaa taaaagagat tatgtgtaag atgattgaaa
     3001 tgtcctccat aaaatcaggt gtcttcaata ttctgatatg ctactgctgc caatcttggc
     3061 tagcagctgc ctccggtgtg gcccaggggt cattctccag tgctaaggat tacagtgaac
     3121 ttgtcctgga ggcttgtgtg tttggaacag tgtttaggcg tgatcagaga ctcattcagg
     3181 atgtccaaac cttcatagaa aaccttggac aaggctgtgc agcaaacatc atcctagaga
     3241 acaccaagag agaagattat tacgtgagaa tctgtgtcat caaattcttg tgtctgctag
     3301 atggctccga cgtgtcccac aagttgtttt tagaagatct tgcagtcaag ctcttggata
     3361 aggatgagtc agcatccagg tccagaactc gataccacga gaactccctc cagcaccggg
     3421 tgaagaaccg tgtatggcag actctgcttg tcctcttccc tgcatttgat cagaacttct
     3481 tacatggaat tattgataag gttttccatg ctggcttcac caacaatcaa gcgtccataa
     3541 aatattttat tgagtggctt attatattga tccttcataa atttcctgag tttcttccaa
     3601 agttctgggc gtgtttttct tacggtgaag aaaaaattaa aacaagcatt tgtacatttt
     3661 tatccgtttt atcacatttg gacatcattg ttcagaatat tccagaaaag aagctggttc
     3721 tgaagcaagc cctcaccgtg gccctgcagt ggtgtctgag ccacaacttc agcgttcgac
     3781 tctacgctct ggtagccctc aagaaggcct ggcatctgtg taaagcactg cagtttgaag
     3841 agtgtggcgc ctggaccaca gtcattgagt gcagcctcag ccaagcagag agcatgcacg
     3901 gagcagggaa cgccaggaag aactggcagc gcatccagga ccatttcttc ttctccacct
     3961 ttcaccccct gaaggactac agtctggaga ccatatttta cacgttccca cggctctcag
     4021 gtgtcactga agaagagtgg attgccctgg agaagtttgc caacttcaca gacatccctt
     4081 ccaacgtggg gtcccagtgg tacctgtctg ggattacact tggtgagctg agtccaggag
     4141 actggtccca gcaggaccaa ggttctactc tgggtgaagc agacagccaa tcagagtggg
     4201 ctgatgtcca gaaaaaaatc atcccgtggg gacacagtgc tctggattca gacctggagc
     4261 ttgagtttca ggaccgggct gccaagctgg gaaagtccat tagcagactg atcgttgtgg
     4321 cctcactcat cgacaagcca accaacctag gagggctgtg caggacctgt gaggtgttcg
     4381 gggctgccgt acttgtcgtc ggtagtcttc agtgtgtcag tgacagacag ttccagcacc
     4441 tcagtgtctc tgcagagcag tggcttcctc tggtggaggt caggccatcc cagttagtgg
     4501 attatctgca gcagaaaaag gcggaaggct acactgtcat tggtgtggag cagacagcac
     4561 aaagctcaga cttggcccag taccgcttcc ctgagaagtc actgctgctg ttgggaaacg
     4621 agcgggaagg aatcccagtc aacctgatcc agcagctgga tgtgtgtgtg gagattcctc
     4681 agcagggcat catccgctca ctaaatgtgc acgtgagcgg ggctctgctg atctgggagt
     4741 acaccagaca gcagctgctc gggtgtgcag ggccaccgtc atgaaggctg ggcctcaccc
     4801 tcgatctcac atggtgctat ggatggtgac tcacaaccat ctggactaac gaaatattct
     4861 gagatgtcct ggggttacct tcatgtctct aaccttgcac ctcaatgcca aaaccttttc
     4921 atgtgcctta aagtatatca ctatatatat tgtccccttt ttagctaacc ttttaaaagt
     4981 attttaaaca tttatggagt tttttaaaaa ggaattttta aggtatgttc ttcctagaaa
     5041 ccagtattgt taggctggca taactaacgt tgttgtttat gagcacctat gtccttctgt
     5101 tttgaagcag cagctgaggc agagggaagg gtttgagagc cagcagcctt ctctccctgc
     5161 tgttaggtac ctgtgtattc ctgctcagag aggaaacact tatggcaaga tgtgaatcag
     5221 ctccaatgat gttctttatc cgcgggtcct aggcttcatc accaaagcca tgaattgagc
     5281 ccacattgtt cattaggttt acgtgagatt tgccctatac gactgtgctc tgacggtggt
     5341 tggaaatctg tctctgagga ctgtaatcat cgagccactc ctgtgaatcc ctactgaagc
     5401 caagaactaa cccaagcagg cttcctgttc agacagctgc atttaatggt aatccttatc
     5461 attcctgcaa ggaattgctg tccctggaac ccttacagga atactgcaat ttcagagtcc
     5521 actgcctatt cattctctcc tgaagctttg atctacaaca gtgtttcatg acaggccacc
     5581 acacttcatc tctaccccac ttcagccaga agccgctcca gtgatgagat gactgacatt
     5641 acaggactgg ctcctaacag gaagcccaga gcattcccag ctcatgcagg tgtctgcttg
     5701 tgtcgttggt ttttccatcc atcgctggga tacctcctcc tgccacgggg atccggtttt
     5761 acgtgactga gtgatgctgc agcttttcct tccagttcat ttggtgaggg tacctaggag
     5821 tggggctggt gggtcaaagg tcagcgtgtt tgactgaaaa cctctgcaga gggctttccc
     5881 agtttacagt atcaccaaga gtgacttgtt ctgcatcctt gtcatcattt ggtattgtca
     5941 gattttaatt taagccattc taacaggtat cttgtgacgt atcagtatgg cattaatttc
     6001 cattctaata ttgaatgata aggaggatct tttaagagat ttgtcttctg tcgaattttg
     6061 agaaatgtac atcacacaat tggaccactt tttaaacagg aattttctta ttaagaatca
     6121 tgaggttctt tttatttttt tctattctgg attcaaattc ttcaggatat cagtgatttg
     6181 tgagtattgt ctccacattt gtgcgttact gttacacttt caggagccca tccttaggcg
     6241 ttttcttaat catcctggag tagacccagt tttcccttcc caacctacat atttatttct
     6301 ctttgtctta ctgaactagg tagcaatcca ggtattgtct gatcacatct gaaaacaatg
     6361 ttttattata acccctctat tagtttaagg cttcttccaa cttcactgtg tgatttctga
     6421 tgctaactgc cagaagcacg cataataacc tatcttagtt tatattttct tgatgtgcaa
     6481 ctatattcgc ttactattca gcttttattc caaaggggga aaggaagatg aacaatgtat
     6541 ttttttataa taaacttttt atataataa
//
