ID DQ344639; SV 1; linear; genomic RNA; STD; VRL; 7581 BP. XX AC DQ344639; XX DT 26-MAY-2006 (Rel. 87, Created) DT 07-AUG-2007 (Rel. 92, Last updated, Version 3) XX DE Black raspberry necrosis virus segment RNA1, complete sequence. XX KW . XX OS Black raspberry necrosis virus OC Viruses; Riboviria; Picornavirales; Secoviridae. XX RN [1] RP 1-7581 RX DOI; 10.1094/PHYTO-97-0044. RX PUBMED; 18942935. RA Halgren A.B., Tzanetakis I.E., Martin R.R.; RT "Identification, Characterization, and Detection of Black raspberry RT necrosis virus"; RL Phytopathology 97(1):44-50(2007). XX RN [2] RP 1-7581 RA Halgren A.B., Tzanetakis I.E., Martin R.R.; RT ; RL Submitted (28-DEC-2005) to the INSDC. RL Botany & Plant Pathology, Oregon State University and USDA-ARS, 3420 RL Orchard Ave., Corvallis, OR 97330, USA XX DR MD5; 9cbac080b9556d7137902dacf1806cb8. DR EuropePMC; PMC2861173; 20229114. XX FH Key Location/Qualifiers FH FT source 1..7581 FT /organism="Black raspberry necrosis virus" FT /segment="RNA1" FT /isolate="BRDaV-1" FT /mol_type="genomic RNA" FT /country="USA" FT /db_xref="taxon:367301" FT 5'UTR 1..146 FT /note="5' non-coding region (5' NCR)" FT CDS 147..6638 FT /codon_start=1 FT /product="polyprotein" FT /db_xref="GOA:Q1G659" FT /db_xref="InterPro:IPR000605" FT /db_xref="InterPro:IPR001205" FT /db_xref="InterPro:IPR004004" FT /db_xref="InterPro:IPR005123" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR014759" FT /db_xref="InterPro:IPR027450" FT /db_xref="InterPro:IPR037151" FT /db_xref="UniProtKB/TrEMBL:Q1G659" FT /protein_id="ABC71319.1" FT /translation="MSYLTKDLAAFISAATEAGYSFDNACELYQRFKIVELNANPVSRA FT FCHTYKEWVDEQFTIPTPEDIDILTVDTVDSSNPAVPDHSTSEDVDTIHCDSCDDAEGP FT PSPISVLRSPLEGFDVDIGEANKSLGIDVSAYPCLPKGKENCDLKNIMAGHLFNSPIFP FT ISAIKQEILAEKDLNRLASLFDVVNTVTHSVGLEQEGFSLSSLTGAIKSRISGATGLAA FT SMVDIVANLSSASSLLEKIFQRIITAFDYIASSIGTFGTFLTGIKEKIIEKCTTLWEKL FT AEWGDHFYYIIPTFCAVFLVSITCFLINKFLAAVAPTYCFSMSVIVHLIVVCCALVGCE FT ELGAALLSLTKAGKLNFLNMIYSTFGAEAGEANITVDDKQPSTYHGVDGVFDDVPLNEG FT ASSMTGFFGVLGLLTFFTPKELKFDLYEMTKWAHGLKGLADGYEKFKVVAEKLAFWAYE FT KVGLAATWDAPAIQSMILVTGIRFQDWCKEVDTLAVEMQGSASLQEDLSRARKLKEQGI FT KIQDYMVRGDSSISFMMRERLKATMGVINDIVSKFEKAIDIGGTRMCPFTVLFFGAPGV FT GKSNTMGPFMHEIMDRNGESKIGRVYPRNSGDEHWSHYMRQTALVYDEFAQRTPTPGKS FT DELELIPLVSCNHYPLVGAAIADKGLSFNSKYIFMCSNRADVSAGAGLADPDAFRRRRH FT VCVEVFKDDTLPFKPDEPYYNQTFQLKNPLRPRDPLTFVDAAGHNQPYQRMTYGELCLY FT VAEKSAEHFDKEAKSLRFMRKTQGLPEGDEFVQEGPFSGFDGSLPISAKAISELSMPHF FT HQADETHQIHGCTDHKVFCCSLYGTKCNVEHTAAEISYVKMVQDDIHPYSYTTNLAISL FT AHSDRTLWDVKGFRKMVKRIKGYGIDDVPEPIDAQTRTFVESAWKGFSDRDRYLIFKYY FT EINDSFKQKALAKVDIIKEEIKSWSVAGCWKAMPMGVKWMIGVIALFSFGCVLVDFLHT FT LMSMRSWSPVDILGNVLGATGAFGVLAFTSEGGSYAGSGVNIEATKYRDKKIKPYSQNG FT GPGGANFTYNELESIEAIKKGQYLLSYSNTCGMSGVAAVFMYKDHSFLISTHEADWINF FT NKTCFMIGRDGTSREVSLAASGVKKVTRDGFIEPVCSIDILPTTPVGKASSQSVWYDFH FT KTNEGRKVGVIVPNNRKDMAQECTKVHFRRNKEVTDCYNFPGSSKGWKASDLLHAKAPH FT GNGMCGRLLLAHCPAGNLMVVGLHVSGGGLNERATSIFGGIDGSYKDVEDGKFYQQGDL FT DVHMKELIEAERVTDMVDKIGRVDSSQQFRPSQGTSIIKSEIHDDLWRRAETCPTVLTR FT SDPRPEVPFDPYQAGIRKFEKEVGPLDFIDEFSTESTVLVDIAEELNNKKREVGGFELD FT TVLDNHAAINGVEGVEYAEPLVMGTSEGYPYVLERQPGDVGKFRYFSKNLYHWELNEGP FT AKELDELEQSVAREDFDGKIITIACAKDEKTKLIKVYEKPKTRIFEILPYHYNILVRKY FT YLFFMQFIMRMHNVLPCKVGLNPFSQDWDEMHAEHTRFEHHFNGDYSGFDTGTPRQLLL FT KFADLISELAADGRRNKVIRRNLMQLAVDRRILVLAELYHVRGGTPSGFALTVIINSMV FT NQFYLMWAWRKIMSRISPSMVTYRVMRTHCTFSVYGDDNVVSFSLAVRDMYNLCTIADE FT LKTIGVTLSDGKKTGVLIKWTGFKDLDFLKRRWELEPGHGFKCPLDKMAIEERLFWVRK FT SEDNMESLDDNCYSALMEAFHHGPEYFHDLREKILDGYQSAGLAAPVLLHYQEARSIWF FT EQHKVGAESDFFAGVQNHLLPSIVGKDVIRTISTTVDWSSIRRYNEAFASGNYNRTKVF FT LDPLAKEILWLKSKSGPHLSIPASLRKETFQSIIEGINRVVPGEICVVDGRGDKSGLVV FT ALALAMDREEISQAQGHNMLLALVTTNKEVEYGLQLFNVLEATSRPSVSLSPKFTTPPA FT ELLKTIVGVELYEVTEAVKKMPFGSVGPSLRGRMALFYSDGAFDYAHDKYHYTSQGWPR FT EVDDLAKKLGGYNSCLVQKYDKGAYIPFHADDEPCYDDNDSVITVNLNGRATFIVRNKT FT TGAETRRELHHGSILEMLPSCQKLCKHSVNVRDQGRVSLTFRRQRRTMNGTPI" FT mat_peptide 147..1691 FT /product="protein cofactor" FT mat_peptide 1692..3206 FT /product="helicase" FT mat_peptide 3207..3284 FT /product="VpG" FT mat_peptide 3285..3986 FT /product="protease" FT mat_peptide 3987..6635 FT /product="RNA-dependent RNA polymerase" FT 3'UTR 6639..7581 FT /note="3' non-coding region (3' NCR)" XX SQ Sequence 7581 BP; 2037 A; 1559 C; 1952 G; 2033 T; 0 other; atcaaagcgc actgaaccca agtttactga aaatttacat ttacttttct ctcttgccgt 60 tctctcaaat tcaccgttct ctttctcaga ttacttgaat actcaagctc tgcactggcg 120 taccacatct gttctattct gtgaagatgt cgtatctcac caaggacctt gccgcattca 180 tctctgcagc tactgaggcc ggttattcat ttgataacgc ttgcgaacta tatcaacgat 240 tcaagatcgt tgaattgaac gcaaatcccg tttcccgcgc tttctgccac acttacaaag 300 agtgggtaga cgagcagttc accatcccca cacctgagga tatcgatatt cttaccgtag 360 acactgtcga ttcttctaac cctgctgtgc ccgaccatag cacttcagag gatgtggata 420 ccattcattg tgactcttgt gatgatgctg aaggaccacc tagtccaatc agcgtacttc 480 gatccccgct tgagggtttc gatgttgata ttggtgaggc taacaagtct cttggaattg 540 acgtctccgc ctacccgtgc ctgccaaagg gtaaggagaa ttgcgatctt aagaatatca 600 tggcaggtca tctgtttaac tcacctattt tcccaatttc tgcaattaag caggaaatct 660 tagcagagaa agatttgaac cgccttgcct cccttttcga tgttgttaac actgttactc 720 attctgttgg attggagcaa gaggggtttt ctctttcttc attgactgga gcaattaaga 780 gccgcatttc aggggccact ggacttgcgg cgtcaatggt cgatattgtg gccaatctat 840 cttcagcttc ctctctgctg gagaaaatct ttcagcgcat tatcactgcg ttcgattaca 900 ttgctagttc cattggcact tttggaactt ttcttactgg aataaaggag aaaatcattg 960 aaaaatgcac cacattgtgg gagaaattgg ctgagtgggg tgatcacttc tactacatta 1020 tacccacatt ctgcgcagtg ttccttgtct ccatcacttg ttttcttata aacaagtttc 1080 tcgcagctgt ggcgcccacc tactgcttca gcatgagcgt gatcgttcat ctcatagttg 1140 tttgttgtgc tctcgtaggt tgcgaggagc ttggcgctgc cctactatcc ttgaccaagg 1200 ctggtaaatt gaattttctg aacatgatct acagcacctt tggagcggag gccggagagg 1260 caaatatcac agtggatgat aaacaaccct ctacatatca tggagtagat ggtgtctttg 1320 atgatgtgcc actcaatgaa ggagcttcct caatgactgg cttcttcgga gttcttggct 1380 tactgacgtt ctttacccca aaggagctca aattcgatct ctatgagatg acaaaatggg 1440 ctcatggtct caagggtttg gccgacggtt atgagaaatt caaagtggtg gctgagaaac 1500 tagctttttg ggcctacgag aaagttggac ttgctgctac ttgggacgcc cctgcgattc 1560 aaagcatgat tctagttact ggaattcgtt ttcaagattg gtgcaaagag gtcgataccc 1620 ttgccgtgga aatgcaagga tcagcaagct tacaggaaga tttgtcgaga gcgaggaaat 1680 tgaaggagca aggcattaag attcaggatt acatggtccg aggagactcc tcaatctcat 1740 tcatgatgag ggagcgcctt aaggccacaa tgggagtgat taatgatatc gtgagcaaat 1800 ttgagaaagc catcgacata ggtggtacaa gaatgtgtcc atttacggta ttattctttg 1860 gtgctcctgg cgttggaaaa tccaatacta tgggaccctt catgcatgaa ataatggaca 1920 gaaatggaga atctaagatt ggtagggtgt accctagaaa ttctggagat gagcactggt 1980 cgcattacat gcgacagacg gcacttgtat atgatgaatt tgcacagcgg acccctacac 2040 caggaaagag tgatgaactg gagttgatac ctttggtttc ttgtaaccat tacccattgg 2100 ttggggctgc aatagccgat aagggtctgt ctttcaactc aaaatacatc ttcatgtgct 2160 cgaacagggc agatgtttcg gctggagctg gtttggctga tccggatgct tttaggagga 2220 gaaggcacgt atgtgtggaa gtcttcaaag acgacactct gccatttaag cccgatgagc 2280 cttactacaa tcagactttt cagctcaaga atcctttgag gccaagagat cccctcactt 2340 ttgttgacgc ggctggacat aatcaaccat atcagagaat gacatatggt gaactctgcc 2400 tgtatgtggc ggaaaaatct gctgaacact ttgacaagga agcgaaatcg ctcaggttca 2460 tgaggaaaac ccaaggatta ccggaaggtg atgaatttgt tcaagagggt ccctttagtg 2520 gtttcgacgg tagtttgcca atctctgcta aggccatatc agagctatca atgccccatt 2580 tccatcaggc agacgagacc caccagatac atgggtgcac tgaccataag gtcttttgtt 2640 gcagtctata tgggacgaag tgcaatgtgg aacatacagc tgccgagata tcttacgtca 2700 agatggtcca ggatgacatt cacccatact cgtacaccac caacttggcg ataagtctgg 2760 cccacagtga cagaactcta tgggatgtaa agggattccg gaagatggtg aagagaataa 2820 aggggtacgg cattgatgat gttccggaac caattgatgc ccagacccga acatttgtgg 2880 agagtgcttg gaaggggttc tcagacagag atagatatct cattttcaag tattatgaga 2940 ttaatgattc attcaagcag aaagctctgg cgaaggtgga catcataaaa gaggagatca 3000 agtcctggag tgttgccggt tgttggaagg ccatgcctat gggcgtgaaa tggatgatcg 3060 gggtcatagc acttttctca tttggatgtg tgttggtgga tttcctgcat acacttatgt 3120 cgatgaggtc gtggagccca gtggatattc ttggaaacgt tttgggggcc acaggagctt 3180 ttggcgtttt ggcttttacg tctgaaggag gatcgtatgc aggttcggga gtgaatatcg 3240 aagccacgaa gtaccgggac aagaaaataa agccatactc tcagaatggt ggccctggtg 3300 gagccaattt cacgtacaat gaacttgagt caattgaagc catcaagaag ggccagtatc 3360 tgctgtcgta cagcaatacc tgtggcatga gtggcgttgc tgcagttttc atgtacaagg 3420 accattcgtt tctgatatcc actcacgagg ccgattggat aaatttcaac aagacctgct 3480 tcatgatcgg aagagatgga acttcgaggg aggttagctt ggccgcttct ggagtgaaga 3540 aggtcacaag ggatggtttc attgagccag tttgctccat agacatatta ccgactaccc 3600 cggttggtaa ggccagctct caatcagtgt ggtatgactt ccacaagacc aatgaaggaa 3660 ggaaggtcgg tgtgattgtg ccaaacaaca ggaaggacat ggcacaggaa tgtaccaagg 3720 tccattttag acggaacaag gaggttacag attgctacaa ttttcctggg agttctaaag 3780 gttggaaggc cagtgatctt ctgcatgcaa aggctcctca tgggaatgga atgtgtggga 3840 ggttgttgtt ggcccattgt cccgctggta atctgatggt tgttggattg cacgttagtg 3900 ggggaggtct taacgagaga gccactagca tctttggcgg gatagatggc tcctacaagg 3960 acgtcgagga cggaaagttt tatcagcaag gggacttgga tgtgcacatg aaagaactga 4020 tagaagcaga gagagtgaca gatatggttg acaagatcgg gcgagttgat tcatcgcagc 4080 aattcaggcc ctcacaagga acctcaatca ttaagagtga aattcatgat gacttgtgga 4140 ggagagcgga aacttgcccc acagtactga ctcgatcgga tcctcgcccc gaagtaccgt 4200 tcgaccctta ccaggctggt atccggaaat ttgagaaaga ggtggggccc cttgatttca 4260 ttgatgaatt ttcaacagaa agcacagtgc ttgtggacat agctgaggaa ctgaacaata 4320 agaagcgaga ggttggcggt tttgagttgg acactgtgct cgacaatcat gctgctatca 4380 atggagttga aggtgttgaa tatgctgagc cacttgtgat gggaacatct gaggggtatc 4440 cctatgtgct cgagagacaa cctggggatg ttggaaagtt tagatacttc agcaagaatc 4500 tctatcactg ggagcttaat gaggggccgg caaaggagct ggatgaactg gagcaatcgg 4560 tggcaagaga agattttgat gggaagatca taaccattgc ctgcgcgaag gatgaaaaga 4620 ccaagctaat caaggtctac gagaagccca agactagaat ttttgaaatc ttaccctatc 4680 attataacat tctggtgagg aaatattatc tcttcttcat gcagttcatc atgagaatgc 4740 acaatgttct gccttgtaag gtcggtctta accctttctc tcaggattgg gatgaaatgc 4800 atgcggaaca caccagattt gaacaccatt tcaatggtga ctattcgggg ttcgacactg 4860 gtactccaag gcagctatta cttaaatttg ctgatcttat ctctgagttg gctgccgatg 4920 ggaggaggaa caaggtgatt agaaggaatc tcatgcagct ggctgttgat agaaggatct 4980 tggtattggc cgagttgtac catgtgagag gggggactcc atctgggttc gctttaaccg 5040 tgattatcaa ctcaatggtc aatcaattct atctgatgtg ggcttggagg aaaatcatga 5100 gcaggataag cccaagcatg gtgacataca gggtgatgag aacccattgt actttctctg 5160 tgtatgggga tgacaatgtc gtgtctttta gcctggctgt aagagatatg tacaatctat 5220 gcaccatagc tgatgaactc aagactattg gggtcacctt atctgatggg aaaaagactg 5280 gagttctgat taagtggacc gggttcaagg acctcgattt cctgaagaga cgatgggagt 5340 tggaaccagg gcatggattc aaatgccctc tggacaaaat ggcaatagag gaaagactct 5400 tctgggttag gaagtcagag gacaacatgg aatcgctcga tgacaactgt tattcagcac 5460 tgatggaggc gttccaccac ggcccagaat actttcacga cctcagggag aagatattgg 5520 acggatatca atcggctggt ctcgcagcac ctgttcttct ccactatcaa gaagccaggt 5580 ccatttggtt tgagcaacac aaggtaggag cggaatcgga tttctttgct ggggttcaga 5640 atcaccttct cccaagcatt gtcggcaagg acgtgatcag gactattagc acaaccgttg 5700 attggagctc tataaggaga tacaatgaag catttgcgag tggcaactac aacaggacca 5760 aagttttcct cgatccgctt gcgaaagaaa ttttgtggct caagtcaaaa agtgggcccc 5820 atctgagtat cccagcttcg cttaggaagg aaactttcca gtcaatcata gaggggataa 5880 accgggtagt gcctggagag atttgtgttg tggacggcag gggtgataaa tcaggattag 5940 tggtagctct tgctctggca atggataggg aagaaattag tcaggcacag ggacacaata 6000 tgttgctggc attggttact actaataagg aagttgaata tggacttcaa ttgttcaatg 6060 tcttggaagc cacaagcagg ccgtcggttt cattatctcc aaaatttacc actccacctg 6120 ctgaattgct caaaaccatt gtcggagtgg agctttatga agtgaccgag gctgtcaaga 6180 agatgccttt tggtagtgta gggcccagtc taaggggtag gatggcccta ttttactcag 6240 atggggcttt tgactatgcg catgacaaat accactacac ttcacagggc tggcccaggg 6300 aggtggatga cttagcgaaa aagcttgggg gctacaattc ctgtttagtc cagaaatacg 6360 acaaaggagc ttatatccct ttccatgcag atgacgaacc atgctatgat gataatgact 6420 ctgtaatcac tgtcaatttg aatggtagag ccactttcat cgttaggaat aagacgactg 6480 gggcggaaac ccgccgcgaa ctgcaccatg gatcaatact tgagatgctc ccgagttgcc 6540 agaagttgtg taagcactca gttaatgtta gggaccaagg aagagtgagc ctaactttta 6600 ggcgtcaaag gaggaccatg aatgggaccc ctatttaaat tgatttacta gttctagtta 6660 cagttttgga tcaaacttta aatgatatcc ggtttcccct gccttaaggg ggtcacaagg 6720 ataatgtctg gtggagcacc tattcttagt tgaatgggcc acttggtgta cgtcaggctt 6780 aagtgatctg gcggtcctat catattccag gatttaacct ggttcagggg taacccgtat 6840 gtagccttga atagacgagg caaatagctc tgcacgctgc tattcaaata agggtcgtgt 6900 gcccagtccc ggttagaagg acacccacat ttcataggac cagtatcaat tgggaggaag 6960 ggtaaggagt attcatccgt gtaacgctct gtgaactgaa gccccatact gagaaagtct 7020 gaactctttg tggtaagttt gttggaactt taaaccaaca gcccaacccc ggttagaagg 7080 gtcgagtggt tctacgttag tgaaccagaa cctcgggaga gttttcctag gatccagacc 7140 gaattctggc agcttgcatg gcaagataca ctgtagagtg gaggcttgat aaccctcctg 7200 cagtaggcaa ggcaatggct tttctgtcgg cggtagcgtc ccgacccttg tttatgttcg 7260 cccgatcagt gaaaggccga ttcgtgtatc gttaaacacg aaatcgggag atttatccta 7320 ggatccagac cgaattctgg cagcttgcac ggcaagacga taccaaatat cgtgaatttg 7380 gagaactggg aagttggtcc agtgtaaata ccaacccttg ttggcagcaa tttttctgtc 7440 aagtatgaca cgcttctgtg tcgcaagaat ggacacttgt ccgcaaaaag attttactta 7500 gttgtaatgt cactaatttt cttgcggggg aatagaccgt taaaggtaga ttcctctgta 7560 ttgttaacct tagttagatg t 7581 //