Recode v. 2.0 / Database of translational recoding events.
Details for "r200524"
| Accession number | r200524 [export] |
| Locus name | gag-pro-pol |
| Recode1 name | pro_m_vir_opav, pol_m_vir_opav |
| Description | viral or mobile polyprotein |
| Recode status | Reviewed |
Organism
| Genomic class | Viral Genome (Virus) |
| Organism | Jaagsiekte sheep retrovirus [details] |
| Acronym | JSRV |
Sequence
| GenBank IDs | NC_001494 |
| Sequence | RNA of 5179 nucleotides [sequence] |
| Organisation | Complex structure (1) [see structure]
Pseudoknot structure (1) [see structure]
Sequence (2)
Trans/Interaction (2)
|
Recoding events
| Event type | -1 Frameshifting (position: 1,698) |
| Description | this is the CDS part of the sequence. |
| Models | HMM |
| Event type | -1 Frameshifting (position: 2,594) |
| Description | this is the CDS part of the sequence. |
| Models | HMM |
ATGGGACACA CGCATAGTCG TCAGTTGTTT GTGCATATGT TATCTGTAAT GTTAAAACAT AGGGGGATCA
CTGTTTCTAA AACTAAATTA ATTAATTTTC TTTCATTTAT TGAGGAAGTT TGCCCTTGGT TTCCTAGGGA
AGGCACAGTG AATTTGGAGA CATGGAAGAA GGTGGGAGAG CAAATTCGGA CGCATTATAC CTTACACGGC
CCTGAAAAGG TCCCTGTCGA GACATTATCT TTTTGGACAT TGATTCGTGA CTGCCTGGAT TTTGATAATG
ATGAATTGAA ACGTTTAGGA AATTTGTTAA AACAGGAAGA AGATCCTCTC CATACCCCTG ATTCGGTACC
TAGTTATGAT CCTCCTCCTC CTCCTCCGCC ATCTCTGAAA ATGCACCCTT CTGATAATGA TGATTCACTT
TCATCTACAG ATGAGGCAGA ATTAGACGAG GAAGCTGCTA AGTATCATCA AGAAGATTGG GGTTTTTTAG
CACAAGAAAA AGGGGCATTA ACATCTAAAG ATGAATTGGT TGAGTGCTTT AAAAATCTTA CTATTGCCTT
ACAGAATGCA GGGATTCAGC TTCCTAGTAA TAACAATACC TTTCCCTCTG CTCCGCCTTT TCCTCCTGCT
TATACTCCCA CTGTTATGGC TGGCCTTGAT CCCCCTCCCG GGTTTCCTCC GCCGTCTAAA CATATGTCTC
CATTGCAAAA GGCATTAAGA CAGGCACAAC GACTCGGTGA AGTTGTTTCT GATTTCTCTC TTGCCTTTCC
TGTCTTCGAA AATAACAACC AGCGTTACTA TGAATCACTG CCGTTTAAAC AACTAAAAGA GTTAAAGATT
GCTTGTTCGC AATATGGTCC TACCGCTCCA TTTACTATTG CTATGATAGA AAGTTTGGGT ACTCAAGCTT
TGCCCCCGAA TGACTGGAAA CAGACCGCTA GGGCATGTCT CTCAGGGGGA GATTATTTAT TATGGAAATC
TGAATTTTTT GAACAATGTG CTCGTATAGC TGATGTTAAC CGACAGCAAG GTATACAGAC CTCCTATGAA
ATGTTGATTG GCGAAGGCCC TTATCAGGCT ACTGATACGC AGCTTAATTT CTTACCTGGT GCATATGCAC
AAATATCGAA TGCGGCTCGA CAGGCATGGA AAAAACTTCC TAGCTCCAGT ACTAAGACAG AGGACCTTTC
AAAGGTCCGG CAGGGACCTG ATGAGCCTTA CCAGGACTTC GTGGCACGAC TTTTAGATAC TATAGGTAAG
ATAATGTCAG ATGAAAAGGC TGGGATGGTG CTGGCAAAAC AATTAGCTTT TGAAAACGCT AACTCTGCTT
GTCAAGCTGC TTTGAGACCT TATCGAAAAA AGGGAGATCT ATCTGATTTT ATTCGCATTT GTGCTGATAT
TGGACCCTCC TACATGCAAG GCATTGCTAT GGCAGCAGCA TTACAAGGAA AAAGCATAAA AGAAGTACTT
TTCCAGCAGC AAGCCCGGAA CAAGAAAGGA CTTCAAAAGT CAGGTAATTC GGGTTGCTTT GTTTGTGGTC
AGCCTGGCCA TCGGGCTGCA GTATGCCCTC AAAAACATCA AACCTCTGTT AATACCCCTA ATTTGTGCCC
ACGCTGTAAA AAAGGAAAGC ATTGGGCACG AGACTGCCGT TCCAAGACAG ATGTTCAAGG CAATCCTTTG
CCCCCGGTTT CGGGAAACTG GGTGAGGGGC CAGCCCCTGG CCCCGAAACA ATGTTATGGG GCAACACTGC
AGGTTCCAAA AGAACCATTG CAGACCTCTG TCGAGCCACA AGAGGCAGCG CGGGATTGGA CCTCTGTGCC
ACCTCCTATA CAGTATTAAC CCCTGAGATG GGAGTTCAAA CTCTTGCCAC AGGAGTGTTT GGGCCTTTAC
CTCCAGGGAC AGTTGGATTA CTTCTGGGAC GCAGCAGTGC GTCTTTAAAG GGAATACTTA TTCACCCTGG
TGTTATTGAC TCCGATTATA CAGGAGAGAT AAAAATATTA GCCTCCGCTC CTAACAAAAT TATTGTAATT
AATGCGGGAC AGCGAATAGC TCAACTTCTT TTAGTTCCAT TAGTCATACA GGGAAAAACA ATTAACAGAG
ACCGTCAAGA TAAAGGTTTC GGATCCTCTG ACGCCTATTG GGTGCAAAAT GTTACTGAGG CACGGCCAGA
ACTCGAGCTA CGCATTAATG CAAACTTTTT CCGCGGGGTA CTAGATACAG GGGCCGATAT TAGTGTCATT
TCTGATAAAT ATTGGCCTAC CACATGGCCA AAACAGATGG CTATTTCCAC TCTCCAGGGT ATTGGCCAAA
CTACCAATCC AGAACAGAGT TCATCCCTTC TTACTTGGAA GGATAAAGAT GGACATACAG GCCAATTTAA
ACCTTATATT CTGCCCTATC TTCCAGTTAA TCTATGGGGG CGTGATATAT TAAGCAAAAT GGGTGTTTAT
TTATATAGTC CTTCACCCAC TGTGACAGAT TTGATGTTAG ATCAGGGCTT ACTTCCAAAT CAAGGTTTAG
GTAAACAACA TCAAGGCATC ATTTTGCCCC TTGATTTAAA ACCTAATCAA GATCGAAAAG GCTTGGGGTG
TTTTCCCTAG GGACCTCTGA TTCTCCTGTG ACACATGCCG ATCCTATCGA TTGGAAATCT GAGGAACCGG
TATGGGTCGA TCAGTGGCCC CTAACACAAG AAAAACTTTC TGCCGCACAA CAGCTGGTGC AGGAACAGCT
GAGACTTGGT CATATTGAAC CTTCTACTTC TGCTTGGAAT TCTCCAATTT TTGTTATAAA AAAGAAGTCT
GGTAAATGGA GGTTGTTACA AGATCTCCGT AAGGTAAATG AGACGATGAT GCATATGGGA GCCTTACAAC
CTGGGTTGCC CACTCCTTCT GCTATACCTG ATAAATCCTA TATTATTGTT ATAGATTTAA AAGATTGTTT
TTACACTATT CCTCTTGCAC CTCAAGATTG CAAAAGATTC GCTTTCAGTT TACCCTCTGT TAATTTTAAA
GAGCCTATGC AACGCTATCA ATGGAGAGTT CTCCCGCAAG GAATGACTAA TAGCCCTACG CTGTGCCAAA
AATTTGTTGC TACAGCAATA GCTCCGGTTC GTCAACGTTT TCCGCAGCTA TATTTAGTTC ATTATATGGA
TGATATATTA CTAGCTCATA CTGACGAACA TCTATTGTAT CAAGCTTTTT CGATTCTAAA ACAACATTTA
AGCCTTAATG GTCTTGTTAT TGCTGATGAA AAAATTCAGA CTCATTTTCC TTATAATTAT TTGGGTTTCT
CCTTATATCC TCGTGTTTAT AATACCCAAT TGGTAAAATT GCAGACTGAC CATTTAAAAA CTCTAAATGA
CTTTCAAAAA CTTTTAGGAG ACATTAATTG GATACGTCCT TATTTAAAAT TACCCACTTA TACCTTGCAG
CCATTATTTG ACATCCTTAA AGGTGACTCT GATCCTGCGT CACCCCGAAC GCTTTCTTTA GAAGGACGAA
CTGCTTTACA ATCAATAGAA GAAGCTATTA GACAACAACA GATTACTTAT TGTGATTACC AACGATCATG
GGGTTTGTAT ATACTTCCTA CCCCCCGAGC ACCCACAGGG GTTCTCTATC AAGATAAACC TTTGCGATGG
ATATATTTGT CTGCTACTCC AACTAAACAT CTGCTCCCTT ACTATGAACT TGTTGCAAAA ATTATAGCAA
AGGGACGTCA CGAGGCCATC CAATATTTTG GTATGGAACC CCCCTTCATT TGTGTTCCTT ATGCTTTAGA
ACAACAAGAT TGGCTTTTTC AATTTTCAGA TAATTGGTCT ATAGCTTTTG CAAATTACCC CGGACAGATT
ACTCATCATT ACCCTTCTGA TAAATTGTTA CAATTTGCTA GCTCTCATGC CTTTATTTTT CCAAAAATAG
TTCGCCGACA ACCTATTCCC GAAGCGACAC TTATATTTAC AGATGGATCT TCTAATGGAA CTGCAGCTTT
AATCATTAAC CATCAAACCT ATTACGCACA AACCAGTTTT TCTTCTGCTC AAGTTGTCGA ATTATTTGCA
GTCCACCAAG CGTTGCTAAC TGTACCTACT TCCTTCAATT TATTTACAGA CAGCTCCTAT GTGGTCGGTG
CCTTACAGAT GATTGAAACT GTTCCAATTA TCGGCACCAC CTCTCCTGAA GTTCTTAACT TATTTACATT
GATTCAACAG GTTCTCCATT GCCGCCAACA CCCCTGTTTC TTTGGACATA TTCGTGCACA CTCCACCCTT
CCTGGTGCCC TCGTACAAGG CAATCACACT GCGGACGTTC TTACTAAACA AGTGTTTTTC CAATCAGCTA
TTGATGCAGC CCGAAAATCC CATGATTTAC ATCACCAAAA TAGTCATTCT TTACGCTTGC AATTTAAAAT
TTCCCGTGAA GCTGCACGGC AAATTGTTAA ATCTTGCTCT ACTTGTCCTC AATTCTTTGT TCTCCCTCAA
TATGGTGTCA ACCCTCGAGG TTTACGCCCT AATCACCTCT GGCAAACAGA TGTTACTCAC ATTCCTCAAT
TTGGGCGTCT TAAATATGTT CATGTTTCTA TTGACACTTT TTCCAATTTT CTCATGGCTT CCCTTCACAC
TGGAGAATCA ACACGTCACT GTATTCAACA TTTGCTGTTT TGCTTTTCTA CTTCAGGAAT CCCACAAACC
CTTAAAACAG ATAATGGACC TGGTTATACT AGCCGTTCTT TTCAACGTTT TTGTCTTTCT TTCCAAATTC
ATCATAAAAC AGGAATTCCT TATAATCCAC AGGGACAAGG TATTGTGGAA CGAGCCCATC AACGAATTAA
ACATCAATTA TTAAAACAAA AAAAGGGGAA TGAACTGTAT AGCCCCTCAC CACATAACGC CTTAAACCAT
GCTCTTTATG TTTTAAATTT TTTAACTTTA GACACAGAAG GCAATTCAGC AGCCCAGCGT TTTTGGGGAG
AACGATCCTC ATGCAAAAAA CCACTTGTGC GATGGAAGGA TCCACTTACC AATCTGTGGT ATGGGCCAGA
CCCTGTATTA ATATGGGGAC GAGGGCATGT TTGTGTTTTT CCACAGGATG CCGAAGCGCC GCGCTGGATT
CCGGAAAGGC TGGTACGCGC GGCAGAGGAA CTCCCTGACG CATCAGATGC AACGCATGAC CCTGAGTGA
Products
| Product | gag |
| Description | gag polyprotein |
MGHTHSRQLF VHMLSVMLKH RGITVSKTKL INFLSFIEEV CPWFPREGTV NLETWKKVGE QIRTHYTLHG
PEKVPVETLS FWTLIRDCLD FDNDELKRLG NLLKQEEDPL HTPDSVPSYD PPPPPPPSLK MHPSDNDDSL
SSTDEAELDE EAAKYHQEDW GFLAQEKGAL TSKDELVECF KNLTIALQNA GIQLPSNNNT FPSAPPFPPA
YTPTVMAGLD PPPGFPPPSK HMSPLQKALR QAQRLGEVVS DFSLAFPVFE NNNQRYYESL PFKQLKELKI
ACSQYGPTAP FTIAMIESLG TQALPPNDWK QTARACLSGG DYLLWKSEFF EQCARIADVN RQQGIQTSYE
MLIGEGPYQA TDTQLNFLPG AYAQISNAAR QAWKKLPSSS TKTEDLSKVR QGPDEPYQDF VARLLDTIGK
IMSDEKAGMV LAKQLAFENA NSACQAALRP YRKKGDLSDF IRICADIGPS YMQGIAMAAA LQGKSIKEVL
FQQQARNKKG LQKSGNSGCF VCGQPGHRAA VCPQKHQTSV NTPNLCPRCK KGKHWARDCR SKTDVQGNPL
PPVSGNWVRG QPLAPKQCYG ATLQVPKEPL QTSVEPQEAA RDWTSVPPPI QY
| Product | gag-pro |
| Description | gag capsid polyprotein, protease. |
| Modifications | 1698..1698:ribosomal_frameshift |
MGHTHSRQLF VHMLSVMLKH RGITVSKTKL INFLSFIEEV CPWFPREGTV NLETWKKVGE QIRTHYTLHG
PEKVPVETLS FWTLIRDCLD FDNDELKRLG NLLKQEEDPL HTPDSVPSYD PPPPPPPSLK MHPSDNDDSL
SSTDEAELDE EAAKYHQEDW GFLAQEKGAL TSKDELVECF KNLTIALQNA GIQLPSNNNT FPSAPPFPPA
YTPTVMAGLD PPPGFPPPSK HMSPLQKALR QAQRLGEVVS DFSLAFPVFE NNNQRYYESL PFKQLKELKI
ACSQYGPTAP FTIAMIESLG TQALPPNDWK QTARACLSGG DYLLWKSEFF EQCARIADVN RQQGIQTSYE
MLIGEGPYQA TDTQLNFLPG AYAQISNAAR QAWKKLPSSS TKTEDLSKVR QGPDEPYQDF VARLLDTIGK
IMSDEKAGMV LAKQLAFENA NSACQAALRP YRKKGDLSDF IRICADIGPS YMQGIAMAAA LQGKSIKEVL
FQQQARNKKG LQKSGNSGCF VCGQPGHRAA VCPQKHQTSV NTPNLCPRCK KGKHWARDCR SKTDVQGNPL
PPVSGNLGEG PAPGPETMLW GNTAGSKRTI ADLCRATRGS AGLDLCATSY TVLTPEMGVQ TLATGVFGPL
PPGTVGLLLG RSSASLKGIL IHPGVIDSDY TGEIKILASA PNKIIVINAG QRIAQLLLVP LVIQGKTINR
DRQDKGFGSS DAYWVQNVTE ARPELELRIN ANFFRGVLDT GADISVISDK YWPTTWPKQM AISTLQGIGQ
TTNPEQSSSL LTWKDKDGHT GQFKPYILPY LPVNLWGRDI LSKMGVYLYS PSPTVTDLML DQGLLPNQGL
GKQHQGIILP LDLKPNQDRK GLGCFP
| Product | gag-pro-pol |
| Description | gag capsid polyprotein, protease, RNA polymerase. |
| Modifications | 1698..1698:ribosomal_frameshift|2594..2594:ribosomal_frameshift |
MGHTHSRQLF VHMLSVMLKH RGITVSKTKL INFLSFIEEV CPWFPREGTV NLETWKKVGE QIRTHYTLHG
PEKVPVETLS FWTLIRDCLD FDNDELKRLG NLLKQEEDPL HTPDSVPSYD PPPPPPPSLK MHPSDNDDSL
SSTDEAELDE EAAKYHQEDW GFLAQEKGAL TSKDELVECF KNLTIALQNA GIQLPSNNNT FPSAPPFPPA
YTPTVMAGLD PPPGFPPPSK HMSPLQKALR QAQRLGEVVS DFSLAFPVFE NNNQRYYESL PFKQLKELKI
ACSQYGPTAP FTIAMIESLG TQALPPNDWK QTARACLSGG DYLLWKSEFF EQCARIADVN RQQGIQTSYE
MLIGEGPYQA TDTQLNFLPG AYAQISNAAR QAWKKLPSSS TKTEDLSKVR QGPDEPYQDF VARLLDTIGK
IMSDEKAGMV LAKQLAFENA NSACQAALRP YRKKGDLSDF IRICADIGPS YMQGIAMAAA LQGKSIKEVL
FQQQARNKKG LQKSGNSGCF VCGQPGHRAA VCPQKHQTSV NTPNLCPRCK KGKHWARDCR SKTDVQGNPL
PPVSGNLGEG PAPGPETMLW GNTAGSKRTI ADLCRATRGS AGLDLCATSY TVLTPEMGVQ TLATGVFGPL
PPGTVGLLLG RSSASLKGIL IHPGVIDSDY TGEIKILASA PNKIIVINAG QRIAQLLLVP LVIQGKTINR
DRQDKGFGSS DAYWVQNVTE ARPELELRIN ANFFRGVLDT GADISVISDK YWPTTWPKQM AISTLQGIGQ
TTNPEQSSSL LTWKDKDGHT GQFKPYILPY LPVNLWGRDI LSKMGVYLYS PSPTVTDLML DQGLLPNQGL
GKQHQGIILP LDLKPNQDRK GLGCFSLGTS DSPVTHADPI DWKSEEPVWV DQWPLTQEKL SAAQQLVQEQ
LRLGHIEPST SAWNSPIFVI KKKSGKWRLL QDLRKVNETM MHMGALQPGL PTPSAIPDKS YIIVIDLKDC
FYTIPLAPQD CKRFAFSLPS VNFKEPMQRY QWRVLPQGMT NSPTLCQKFV ATAIAPVRQR FPQLYLVHYM
DDILLAHTDE HLLYQAFSIL KQHLSLNGLV IADEKIQTHF PYNYLGFSLY PRVYNTQLVK LQTDHLKTLN
DFQKLLGDIN WIRPYLKLPT YTLQPLFDIL KGDSDPASPR TLSLEGRTAL QSIEEAIRQQ QITYCDYQRS
WGLYILPTPR APTGVLYQDK PLRWIYLSAT PTKHLLPYYE LVAKIIAKGR HEAIQYFGME PPFICVPYAL
EQQDWLFQFS DNWSIAFANY PGQITHHYPS DKLLQFASSH AFIFPKIVRR QPIPEATLIF TDGSSNGTAA
LIINHQTYYA QTSFSSAQVV ELFAVHQALL TVPTSFNLFT DSSYVVGALQ MIETVPIIGT TSPEVLNLFT
LIQQVLHCRQ HPCFFGHIRA HSTLPGALVQ GNHTADVLTK QVFFQSAIDA ARKSHDLHHQ NSHSLRLQFK
ISREAARQIV KSCSTCPQFF VLPQYGVNPR GLRPNHLWQT DVTHIPQFGR LKYVHVSIDT FSNFLMASLH
TGESTRHCIQ HLLFCFSTSG IPQTLKTDNG PGYTSRSFQR FCLSFQIHHK TGIPYNPQGQ GIVERAHQRI
KHQLLKQKKG NELYSPSPHN ALNHALYVLN FLTLDTEGNS AAQRFWGERS SCKKPLVRWK DPLTNLWYGP
DPVLIWGRGH VCVFPQDAEA PRWIPERLVR AAEELPDASD ATHDPE
Publications
- Palmarini M, Sharp JM, de las Heras M, Fan H. (1999) Jaagsiekte sheep retrovirus is necessary and sufficient to induce a contagious lung cancer in sheep. J Virol. 73(8):6964-6972. [abstract]
- Bekaert M, Rousset JP. (2005) An extended signal involved in eukaryotic -1 frameshifting operates through modification of the E site tRNA. Mol Cell. 17(1):61-68. [abstract]