Recode v. 2.0 / Database of translational recoding events.
Details for "r200541"
| Accession number | r200541 [export] |
| Locus name | gag-pol |
| Recode1 name | pol_m_vir_jdv |
| Description | viral or mobile polyprotein |
| Recode status | Reviewed |
Organism
| Genomic class | Viral Genome (Virus) |
| Organism | Bovine immunodeficiency virus [details] |
| Acronym | BIV |
Sequence
| Variant | Jembrana disease virus |
| GenBank IDs | NC_001654 |
| Sequence | RNA of 4298 nucleotides [sequence] |
| Organisation | Complex structure (1) [see structure]
Sequence (1)
Trans/Interaction (1)
|
Recoding event
| Event type | -1 Frameshifting (position: 1,215) |
| Description | this is the CDS part of the sequence. |
| Models | HMM |
ATGAAGTTGA GCAAGCTTGA GAAGGCCCTT AAAAAGGTAA GGGTGACGCC CCAGAGAGAT GATACTTATA
CAATAGGAAA CGTCCTGTGG GCCATCAGGA TGTGTAGATT GATGGGGCTG GATTGCTGCA TAGATGAGGC
TACAGCAGCG GAGGTGGCAA TTTTGATAGG ACGTTTCCAG TCGTTGGATT TACAAGACTC CCCTTTAAAG
GGAAAGGATG AGAAAGCCAT ATTGACCACT CTGAAAGTTT TGTGGAGCCT GCTGGCGGGC CACCACCCAG
AAAATTCAGA TATGGCAGAA AAGTATTGGG AAGCATGGAC AATCAGAGAA AGGGAGTCCC AAAAGGAGGA
GGAAGGAGAA ATTACCAGCA TCTACCCACA ACTTAGAAAG AACTTCCCCG CTGTATCCAC ATCTGACGGG
TCTCCTAGAT ATGACCCTGA TTTAACAAAA CAGCTAAAGA TTTGGGCAGA TGCGACGGAA AAACATGGGG
TGGACCACCA CGCCGTTAAT ATTTTAGGGG TGATCACAGC AAACTTAACA CAAAGTGAAA TTAGGCTATT
ACTACAAAGC ACCCCACAAT GGAGATTGGA TATTCAGCTC ATAGAATCAA AATTAAATGC CAGGGAGCAC
GCCCATAGGG TCTGGAAAGA GTCCCACCCG GAGGCCCCAA AGACAGATGA GATAATTGGA AAGGGGCTAA
CCGCAGCAGA GCAAGCCACC TTAACCACCC AAGAATGCAG AGACACTTAT AGGCAGTGGG TTTTAGAGGC
GGCGTTAGAG GTAGCACAAG GAAAACATGA CCGGCCCGGA CCTATTAATA TCCACCAGGG GCCGAAAGAG
CCATATCCTG AGTTTGTAAA TAAGTTAGTT ACAGCATTGG AGGGTATGGC AGCACCCGAA ACTACCAAAC
AGTATCTATT AGACCACCTG TCGGTGGATC ATGCAAATGA GGACTGCCGC GCAGTGTTGC TACCTTTAGG
GCCCTCAGCC CCGATGGAGA GGAAGTTAGA GGCATGCAGG GCGGTAGGTT CAAGTAAACA GAAGATGCAA
TTCTTGGCAG AGGCATTTGC AGCTATAAAC GTAAAGGGTG ATGGAGAAGT ACAAAGGTGT TATGGATGTG
GGAAGCCTGG CCATATAAGA AGGGATTGCA AGAACCAGAA ATGTTTCAAA TGTGGAAAAC CGGGCCACTT
ACAAAGGAAC TGCAAATCAA AAAACGGGAG GCGCTCCTCT GCCCCTTCTG GGCAGAGGAG CGGATACCAT
CAGGAGAAGA CTTCTGTGAC CCCGTCTGCT CCCCCGTTGG TATTAGATTA AACAGGCAAC CTTTCATAAA
AATTTTCTTA GGAGGGAGGT GGGTTAGGGC TTTGATAGAT ACAGGGGCAG ATGAGGTAGT GCTGAAAGAC
ATTCATTGGG ATAGAATCAA GGGTGTGCCC GCTGCCTCAG TAGTGCAGGT TGGAGTAACA GGCAGAAATA
TAGCAAGGAG GAAAAGTAAT GTAGAGTGGA GATTCAAAAA CAGATATGGC ATAGTGGACG TCCTGTTCTC
CAACACTCCA GTAAATTTGC TAGGCCGATC AGTACTGCAA AGTATAGTGA CAAAATTTAC TCTAGCTGCA
CACACCAAAC AGATTCAACC ACTTCCGGTC AAGCTACATG GGCCAGGTCC ACGGGTGCCT CAGTGGCCCC
TCACATTAGA AAAATATAAA GCCCTTAAGG AAATTGTTGA GGAACTACTA AAAGATGGAA AAATCTCTAG
AACCCCTTGG GATAATCCTT TCAATACCCC TGTTTTTGTA ATAAAAAAGA AAGGGGGAAG TAAGTGGAGA
ATGCTAATGG ATTTCAGGGC CTTAAATAAA GTGACAAACA AAGGACAAGA ATTCCAAATC GGGCTGCCAT
ACCCCCCAGG AATTCAGCAA TGTGAACATA TAACAGCTAT AGACATAAAA GATGCCTACT TTACCATCCC
TTTAGATGAG AATTTTAGAC AATACACTGC TTTCTCGGTG GTCCCGGTGA ATAGAGAAGG GCCTCTAGAA
AGATATCATT GGAATGTGTT ACCTCAAGGG TGGGTGTGTA GCCCTGCCAT ATATCAAACA ACCACTCAGG
AGATAATTGC AGAGATAAAA GATAGATTTC CTGACATTGT GCTCTATCAA TATATGGATG ACCTTTTAAT
TGGATCAGAC AGACCAGACC ATAAAAGGGT GGTGAGTGAA ATTAGGGAAG AATTAGGGGC TTATGGTTTT
AAAACTCCAG AAGAAAAAAT CCAGGAAGAA CAGGTGCAAT GGTTGGGGTA TGAACTTACC CCGAAAAGGT
GGCGGTTCCA GCCTAGGCAG ATAAAAATAA AAAAGGTGGT AACAGTGAAT GAGCTACAAC AGATGATAGG
AAACTGTGTA TGGGTGCAGC CGGAGGTAAA AATCCCTTTG AGTCCCCTCT CAGATTTACT AAAAGGGAAA
ACTGACCTAA AAGATAAGAT AAAATTGACT GAAGAGGCTA TCCAATGCCT AGAGACAGTA AATAAGAGAT
TAAAAGACCC TGAATGGAAG GAAAGGATAA AGGAAGGAAC TGAGCTGGTA GTTAAAATTC AATTGATCCC
TGAGGGCGTT GTTTATGATC TACTACAGGA TGGAAACCCC ATATGGGGTG GAGTGAAGGG ATGGGATTAT
AATCACGCTA ATAAGATAAA GAAAATGTTA AGTATAATGA AAAAATTGTC CCGGATAGTC ATGATTATGA
CCGGAAGGGA AGTCTCCTTC CTGATACCCG GAGATTCAGA AGACTGGGAA TCTGCCTTAC AGAGGATCAA
TACACTAACA GAGATACCTG AAGTAAAATT CTACAAACAT GCCTGTAGGT GGACCTCTGT CTGCGGTCCT
GTAATAGAAA GATATCCTAC TTATTATACT GATGGAGGCA AGAAAGGGTC TAAGGCAGCA GCAGCCTACT
GGAGGGAGGG AAAAATAAGG AGGGAAGTTT TCCCAGGTAC AAATCAACAG GCAGAACTTA AGGCCGTCTT
GATGGCTCTA CAAGATGGCC CTGCAAAAAT GAATATTATT ACAGACAGTA GATATGCTTT TGAGGGGATG
CGAGAGGAAC CCGAGACTTG GGGAAGAGAA GGACTTTGGA AGGAAATCGG AGAAGAGCTA AGAAGGAAAG
AGTATGTAGG AGTCAGTTGG GTTCCCGGAC ATAAGGGGAT CGGAGGAAAC ACAGAAGTAG ACCAAGAGGT
ACAAAAAGCA CTCCAGGGCC CCATAACAGT GAGTCTCCCA CAAGAAATAC TATTAGAAGC AGGGGAGACA
AAACTTGTGA AGACAGGGAT CTTCTGGGAA GGGCTGAGGC CATGTAAGCT CAGGCCCGAA GAAGGCCTGA
AGCTTAAGGG AAGCTTAATA GATGAAGAAT TACAGCTGGA AATTACAAAT ACTCAAAACA GCAGGGTGGG
AATAAGACAA GGGCAAACAA TTGGCACATG TTTCATTGAA GCTATTCCAC AAGCCATAGA AGAACATGAA
AAATGGCATA CTACAGCGGA GATATTGGCT CGAGAGTTCC AACTACCCAG GAGAGTAGCT AGAGAAATTG
TACACAGGTG TCAAGCATGT AAAAGAACAG TAAGTTGCCC CAGGAGGGGA ACAAACCCAA GAGAAAGATT
CCTATGGCAA ATGGATAATA CCCATCTAGA AGGGAAAATT ATATGGGTAG CTGTGGAAAC AAATTCAGGG
TTGATTGAGG CGCGGGTTAT TCCAGAAGAA AGCGCACAAT CAATAGTGTT TTGCATTTTA ATGCTCGTAT
ACAGGTACAC CGTATACCAC ATACATAGTG ACAACGGGCC CTGTTTCATA GCACAAAAAG TAGAAGCCTT
ATGTAAGTAT CTAAAGATTA CTAAAACAAC TGGTATACCT TACAACCCTC AAGCACAAGC TATAGTAGAA
AGAACACACA GAGACATCAA AGATAAAATA GCAGCATTTA GGGAAGATTG TGAGACAGTA GAGGCGGCTT
TGAGCCTGAC CCTAGTGGCC CTAAATAAAA AAAGAGGGGG AATAGGGGGT CATACCCCAT ATGAAATATA
CCTAGAATCA GAATATAACA AATACCAAGA ACAACAGAAT CACTATAACA ATTTTAAAAC GGAAAAATGG
GCCTATGTTA GGGACAAAAG GAAAGTATGG AAAGGACCAT ACAAAGTCCT ATGGGACGGA GAAGGGGCAG
CAGTGGTAGA AGAAAACGCA ATGCCAACAT TATATCCCCA CCGGCATATG CGATTTATCC CGCCCCCCAA
TACCGATACC CAAGATGGGA ATTTGTGA
Products
| Product | gag |
| Description | gag polyprotein |
MKLSKLEKAL KKVRVTPQRD DTYTIGNVLW AIRMCRLMGL DCCIDEATAA EVAILIGRFQ SLDLQDSPLK
GKDEKAILTT LKVLWSLLAG HHPENSDMAE KYWEAWTIRE RESQKEEEGE ITSIYPQLRK NFPAVSTSDG
SPRYDPDLTK QLKIWADATE KHGVDHHAVN ILGVITANLT QSEIRLLLQS TPQWRLDIQL IESKLNAREH
AHRVWKESHP EAPKTDEIIG KGLTAAEQAT LTTQECRDTY RQWVLEAALE VAQGKHDRPG PINIHQGPKE
PYPEFVNKLV TALEGMAAPE TTKQYLLDHL SVDHANEDCR AVLLPLGPSA PMERKLEACR AVGSSKQKMQ
FLAEAFAAIN VKGDGEVQRC YGCGKPGHIR RDCKNQKCFK CGKPGHLQRN CKSKNGRRSS APSGQRSGYH
QEKTSVTPSA PPLVLD
| Product | gag-pol |
| Description | gag capsid polyprotein, RNA polymerase. |
| Modifications | 1215..1215:ribosomal_frameshift |
MKLSKLEKAL KKVRVTPQRD DTYTIGNVLW AIRMCRLMGL DCCIDEATAA EVAILIGRFQ SLDLQDSPLK
GKDEKAILTT LKVLWSLLAG HHPENSDMAE KYWEAWTIRE RESQKEEEGE ITSIYPQLRK NFPAVSTSDG
SPRYDPDLTK QLKIWADATE KHGVDHHAVN ILGVITANLT QSEIRLLLQS TPQWRLDIQL IESKLNAREH
AHRVWKESHP EAPKTDEIIG KGLTAAEQAT LTTQECRDTY RQWVLEAALE VAQGKHDRPG PINIHQGPKE
PYPEFVNKLV TALEGMAAPE TTKQYLLDHL SVDHANEDCR AVLLPLGPSA PMERKLEACR AVGSSKQKMQ
FLAEAFAAIN VKGDGEVQRC YGCGKPGHIR RDCKNQKCFK CGKPGHLQRN CKSKNREALL CPFWAEERIP
SGEDFCDPVC SPVGIRLNRQ PFIKIFLGGR WVRALIDTGA DEVVLKDIHW DRIKGVPAAS VVQVGVTGRN
IARRKSNVEW RFKNRYGIVD VLFSNTPVNL LGRSVLQSIV TKFTLAAHTK QIQPLPVKLH GPGPRVPQWP
LTLEKYKALK EIVEELLKDG KISRTPWDNP FNTPVFVIKK KGGSKWRMLM DFRALNKVTN KGQEFQIGLP
YPPGIQQCEH ITAIDIKDAY FTIPLDENFR QYTAFSVVPV NREGPLERYH WNVLPQGWVC SPAIYQTTTQ
EIIAEIKDRF PDIVLYQYMD DLLIGSDRPD HKRVVSEIRE ELGAYGFKTP EEKIQEEQVQ WLGYELTPKR
WRFQPRQIKI KKVVTVNELQ QMIGNCVWVQ PEVKIPLSPL SDLLKGKTDL KDKIKLTEEA IQCLETVNKR
LKDPEWKERI KEGTELVVKI QLIPEGVVYD LLQDGNPIWG GVKGWDYNHA NKIKKMLSIM KKLSRIVMIM
TGREVSFLIP GDSEDWESAL QRINTLTEIP EVKFYKHACR WTSVCGPVIE RYPTYYTDGG KKGSKAAAAY
WREGKIRREV FPGTNQQAEL KAVLMALQDG PAKMNIITDS RYAFEGMREE PETWGREGLW KEIGEELRRK
EYVGVSWVPG HKGIGGNTEV DQEVQKALQG PITVSLPQEI LLEAGETKLV KTGIFWEGLR PCKLRPEEGL
KLKGSLIDEE LQLEITNTQN SRVGIRQGQT IGTCFIEAIP QAIEEHEKWH TTAEILAREF QLPRRVAREI
VHRCQACKRT VSCPRRGTNP RERFLWQMDN THLEGKIIWV AVETNSGLIE ARVIPEESAQ SIVFCILMLV
YRYTVYHIHS DNGPCFIAQK VEALCKYLKI TKTTGIPYNP QAQAIVERTH RDIKDKIAAF REDCETVEAA
LSLTLVALNK KRGGIGGHTP YEIYLESEYN KYQEQQNHYN NFKTEKWAYV RDKRKVWKGP YKVLWDGEGA
AVVEENAMPT LYPHRHMRFI PPPNTDTQDG NL
Publications
- Chadwick BJ, Coelen RJ, Sammels LM, Kertayadnya G, Wilcox GE. (1995) Genomic sequence analysis identifies Jembrana disease virus as a new bovine lentivirus. J Gen Virol. 76 ( Pt 1):189-192. [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]