ID JF727261; SV 2; linear; genomic RNA; STD; VRL; 6423 BP.
XX
AC JF727261;
XX
DT 10-MAY-2011 (Rel. 108, Created)
DT 29-JUN-2012 (Rel. 113, Last updated, Version 5)
XX
DE Switchgrass mosaic virus isolate S1, complete genome.
XX
KW .
XX
OS Switchgrass mosaic virus
OC Viruses; ssRNA positive-strand viruses, no DNA stage; Tymovirales;
OC Tymoviridae; Marafivirus.
XX
RN [1]
RC Publication Status: Available-Online prior to print
RP 1-6423
RX PUBMED; 22661377.
RA Agindotan B.O., Gray M.E., Hammond R.W., Bradley C.A.;
RT "Complete genome sequence of switchgrass mosaic virus, a member of a
RT proposed new species in the genus Marafivirus";
RL Arch. Virol. 0:0-0(2012).
XX
RN [2]
RP 1-6423
RA Agindotan B.O., Gray M.E., Hammond R.W., Bradley C.A.;
RT ;
RL Submitted (18-MAR-2011) to the INSDC.
RL Energy Biosciences Institute, University of Illinois, 1206 West Gregory
RL Drive, Urbana, IL 61801, USA
XX
CC On May 10, 2011 this sequence version replaced gi:332183051.
XX
FH Key Location/Qualifiers
FH
FT source 1. .6423
FT /organism="Switchgrass mosaic virus"
FT /host="Panicum virgatum cv. Cave-In-Rock"
FT /isolate="S1"
FT /mol_type="genomic RNA"
FT /country="USA:Champaign, IL"
FT /collection_date="15-Jul-2010"
FT /identified_by="Bright Agindotan"
FT /note="acronym: SwMV"
FT /db_xref="taxon:1027869"
FT 5'UTR 1. .108
FT CDS 109. .6294
FT /codon_start=1
FT /product="polyprotein"
FT /note="Orf1; contains methyl transferase (MTR), helicese
FT (HEL), petidase (PRO), and capsid protein domains"
FT /db_xref="GOA:F5CJX7"
FT /db_xref="InterPro:IPR000574"
FT /db_xref="InterPro:IPR000606"
FT /db_xref="InterPro:IPR001788"
FT /db_xref="InterPro:IPR002588"
FT /db_xref="InterPro:IPR007094"
FT /db_xref="InterPro:IPR008043"
FT /db_xref="UniProtKB/TrEMBL:F5CJX7"
FT /protein_id="AEE25899.3"
FT /translation="MSVFLRGGHLLSGVESLTPTTHRDTITAPIVESLATPLRRSLERY
FT PWSIPKEFHPFLHTCGIDISGFGHAAHPHPVHKTIETHLLMDVWPNYARGPSDVMFIKP
FT EKFAKLQTRQANFSHLINYRLVPKDTTRYPTTSTDLPDCETVFMHDALMYYSPGQIADL
FT FHQCPQLQKLYASLVVPAESSFTHLSLHPELYRFRFQGDDLVYEPEGNPAANYTQPRRA
FT LEWLQTTGFTSGHEFFTVTLLDSFGPVHSLLIQRGRPPVFSAEDSVSFRVPDAIALPAP
FT ASLHQDLRHRLVPRRVYDALFNYVRAVRTLRVTDPADFVRTQVSKPEYSWVTSSAWDNL
FT QHFALQTAAVRPNTSHPLFQSPLARVAHWLRTHTWALWCLASPAASLTAWLAASRFGRL
FT TVLHTDRLRLFGCDLIGRRFWPILPFQSPEARFLWETHSACKPYTLFAGSAFECRVLGA
FT LAHRCSPSPTLSRLFPEAQPARWVVFGSLALAAVPLTALLVRWFLGPDSPQALHDQYHA
FT TFHPDSWSLDLPRRLRSCVREPFLLTGAAPASTPTSAPENFSPDTPRPLTSLRAQAEPS
FT QPSDVQPPKPSAVQPQVAPEPAPAPISPEPAASLPISAEPESVFEPPTSHSPPAQPVAD
FT SEPTSQPSSRAPTPVRQAALLGADLRFGDLPPRSSWAQDPELSPLGESTQGTVFAQIPT
FT PREPESALARLEVDPTASGPIMEFRDLQPGLYLGTTGSFLTRARNSVSSTIQYPARAAC
FT LLVAVRNATSLPTATLWAALAANLPDSILDDGSLVRLGLTTDHFAVLARIFSLRCRFVS
FT DHIDVELGVADATSRFTIRHTPGHFELVADDYSLPALVGASTIPGADLAESCKRFVASD
FT RTVLPFRDVHIHRTSVKRAKNLISNMKNGFDGVMAQANPLDPKSARERFLMLDSCLDIA
FT APRVVRLIHIAGFAGCGKSWPVAQLLKTPAFRTFKLAVPTTELRDEWKGLMEPRDQDKW
FT RFGTWESSLLKSARTLVIDEVYKMPRGYLDLAIHADASIQFVILLGDPIQGEYHSTHPS
FT SSNARLSPEHVYLRPYIDFYCFWSRRIPQYVATILGVPSTSKVSGYARHSSQFPLNGKI
FT LISAMTSAKSLVDCGYQAITIASSQGSTVNGPVHIHLDNHARRLSHQHSLVAITRSRAG
FT LVFTGDPSVADGTSSSNLLFSAVLMNHPISVRSLFSALLPRCPFVESPPTSRSVLLRGA
FT GYGSAPPLRPRESPPMRPDFQGDVIADLSAPFLGDGSSNAPQVSTHFLPESRRPLHFDV
FT PSARHQVADHPLKPDHSACAIEPVYPGESFEQLAALFLPPTDAESKEIRFRGELSNQFP
FT HLDKPFEISAQPSSLLAPVHNSKHDPTLLPASIAKRLRFRHNDSAYTISARDEILGGLL
FT YEAWCRAYRRSPLDIEPFDPVLYAECINLNEFAQLSSKTQATIMANANRSDPDWRWSAV
FT RIFAKTQHKVNEGSLFGSWKACQTLALMHDAVVLLLGPVKKYQRVFDQRDRPSHLYVHA
FT GHTPFEMAEWCQQHLTPAIKLANDYTAFDQSQHGEAVVFERFKMSRLSIPQELIDLHVY
FT LKTNVSTQFGPLTCMRLTGEPGTYDDNTDYNIAVLHLEYAVGSTPLMVSGDDSLLDSEP
FT PVRDQWAAVEPMLALTFKKERGRYATFCGYYVGFTGAVRSPPALFAKLMIAVDDESIDD
FT KLIAYLTEFTVGHSLGDAFWTILPVETVPYQSACFDFFCRRAPAQAKVMLRLGEAPESL
FT LSMAFQGLKWASHSVYALMNSSHRRQLLHSSRRPRSLPEDPEVSQLQGELLHQFQSLHL
FT PLRGASMPNPLAAPFRLLPLGSASLGPSYSVAPLQPPPASESPDSMAENATQVGPAPAR
FT DDRLDRQPAIPAPPRVVETAPTHYIDLPFQWKITDFTGAAAYHDTGDLSASPVLTTLCA
FT PYRHAELISVELSLAPCPPSFTKPIMFTVVWTPATLSPTDGKETDFYGGRQISIGGPVM
FT LSSTTAIPADLTRMNPVIKSSVAYRDTPRWTMSVPAVSGGDTKVNLATGFIRGVIRVSA
FT PSGAAIKAAS"
FT CDS 314. .1591
FT /codon_start=1
FT /product="movement protein"
FT /note="Orf2"
FT /db_xref="UniProtKB/TrEMBL:F5CJX8"
FT /protein_id="AEE25897.3"
FT /translation="MPPTLTRSTRPSKPISSWTSGPTMPEVPPMSCSSSQRSSPSSRRG
FT RPTSPTSSTTDSSRRTRPGIPPHPPTSPTVRPFSCTTLSCTTRPDKSPISSTSAPSSRS
FT CTPPSSSRPSLPSPTFLSIPNFIAFVSRAMTSCMSPKETQPPTTPSLVGHLSGSKPRAS
FT RLAMSSLLSLCSTPSAPCTRSSSREAAPPSSRLRTPSPSGFLTPSLSRPPLPSTKTCDI
FT VSSLGGFTTPCSTTSAPSEPSASPTQLTSSGPKSASQSTRGSRPPPGTTSSTSPCRPQQ
FT SVRTPLTRFSSRPSHVSRTGSGLTRGPSGVWPRPPPLSPPGSQPLDSAASPSSTPTACG
FT CSAAISSAVDSGRSCPSRVLRPASSGRPTPRASPTLSLRDLPLSAESLELWRTGALPRQ
FT LFPASSQKPSPHAGSFSALSPSRLFH"
FT CDS 1655. .2542
FT /codon_start=1
FT /product="unknown"
FT /note="Orf3"
FT /db_xref="UniProtKB/TrEMBL:F5CJX9"
FT /protein_id="AEE25898.2"
FT /translation="MPLSIPTPGLSTFLVGFDLAFESLSFSPGPLRLPLQPQPRRISAL
FT TPHALSPRFGPRPSRPNLPTFSRPNLQRFSPKWRPSRLLPPSVPSQQRPCPSQPNRSLF
FT SSPQPATARRPSLSPIQSLPLSRRPALPPLFGKQPCSGPTSASATFPPAPHGLKILSSP
FT LLASLPKAPFSPKSQLLESPRALSPALRWTPRPAAPSWNLETFSLASTWAPLAPSSLAP
FT GILFLPPSSTQREPLAFWSPSAMLPACQRPLSGPRWPPICRTPFSMTVLSSASGSPPTT
FT SPSSPASSLFVAAL"
FT 3'UTR 6294. .6423
XX
SQ Sequence 6423 BP; 1112 A; 2510 C; 1442 G; 1359 T; 0 other;
jf727261 Length: 6423 29-JUN-2012 Type: N Check: 241 ..
1 ggtcctctgc ccactcctgc gcccgatctc cgcaggtttt actccgcacc
51 ttttcgtccg gagacagatc attccctcac gctcacgaca cgcacccccc
101 ttcaaaggat gtccgtgttt cttcgtggtg gccatctact cagcggagtg
151 gagtctctta cgccaaccac ccaccgcgat accatcacag ctcccatcgt
201 cgagtcactc gccacccctc tccgacgatc tcttgagcga tacccttggt
251 ccatccccaa ggagttccac cccttccttc acacctgcgg cattgacatc
301 tctggctttg gccatgccgc ccaccctcac ccggtccaca agaccatcga
351 aacccatctc ctcatggacg tctggcccaa ctatgccaga ggtccctccg
401 atgtcatgtt catcaagcca gagaagttcg ccaagctcca gacgaggcag
451 gccaacttct cccacctcat caactaccga ctcgtcccga aggacacgac
501 ccggtatccc accacatcca ccgacctccc cgactgtgag accgttttca
551 tgcacgacgc tctcatgtac tactcgcccg gacaaatcgc cgatctcttc
601 caccagtgcc cccagctcca gaagctgtac gcctccctcg tcgtcccggc
651 cgagtcttcc ttcacccacc tttctctcca tcccgaactt tatcgctttc
701 gtttccaggg cgatgacctc gtgtatgagc ccgaaggaaa cccagccgcc
751 aactacaccc agcctcgtcg ggcacttgag tggctccaaa ccacgggctt
801 cacgtctggc catgagttct ttactgtcac tctgctcgac tccttcggcc
851 ccgtgcactc gctcctcatc cagagaggcc gcccccccgt cttctcggct
901 gaggactccg tctccttccg ggttcctgac gccatcgctc tcccggcccc
951 cgcttccctc caccaagacc tgcgacatcg tctcgtccct cggcgggttt
1001 acgacgccct gttcaactac gtccgcgccg tcagaaccct ccgcgtcacc
1051 gacccagctg acttcgtccg gacccaagtc agcaagccag agtactcgtg
1101 ggtcacgtcc tccgcctggg acaacctcca gcacttcgcc ttgcagaccg
1151 cagcagtccg tccgaacacc tctcacccgc ttttccagtc gcccctcgca
1201 cgtgtcgcgc actggctcag gactcacacg tgggccctct ggtgtttggc
1251 ctcgcccgcc gcctctctca ccgcctggct cgcagcctct agattcggcc
1301 gcctcaccgt cctccacacc gaccgcttgc ggctgttcgg ctgcgatctc
1351 atcggccgtc gattctggcc gatcttgccc ttccagagtc ctgaggcccg
1401 cttcctctgg gagacccact ccgcgtgcaa gccctacact ctctttgcgg
1451 gatctgcctt tgagtgccga gtccttggag ctctggcgca ccggtgctct
1501 ccctcgccaa ctctttcccg cctcttccca gaagcccagc ccgcacgctg
1551 ggtcgttttc ggctctctcg ccctcgcggc tgttccactg acagccctcc
1601 ttgtccgctg gttcctgggc cccgattccc cccaagctct tcacgaccag
1651 tatcatgcca ctttccatcc cgactcctgg tctctcgacc ttcctcgtcg
1701 gcttcgatct tgcgttcgag agcctttcct tctcaccggg gccgctccgg
1751 cttccactcc aacctcagcc ccggagaatt tcagccctga caccccacgc
1801 cctctcacct cgcttcgggc ccaggccgag ccgtcccaac cttccgacgt
1851 tcagccgccc aaaccttcag cggttcagcc ccaagtggcg cccgagccgg
1901 ctcctgcccc catcagtccc gagccagcag cgtccctgcc catctcagcc
1951 gaaccggagt ctgttttcga gcccccaacc agccacagcc cgccggccca
2001 gcctgtcgcc gattcagagc ctacctctca gccgtcgtcc cgcgctccca
2051 cccctgttcg gcaagcagcc ttgctcgggg ccgacctccg cttcggcgac
2101 cttccccccc gctcctcatg ggctcaagat cctgagctct cccctcttgg
2151 cgagtctacc caaggcaccg ttttcgccca aatcccaact cctagagagc
2201 ccgagagcgc tctcgcccgc cttgaggtgg accccacggc cagcggcccc
2251 atcatggaat ttagagacct tcagcctggc ctctacctgg gcaccactgg
2301 ctccttcctc actcgcgccc ggaattctgt ttcttccacc atccagtacc
2351 cagcgcgagc cgcttgcctt ctggtcgccg tccgcaatgc taccagcctg
2401 ccaacggcca ctctctgggc cgcgctggcc gccaatctgc cggactccat
2451 tctcgatgac ggttctctcg tccgcctcgg gctcaccacc gaccacttcg
2501 ccgtcctcgc ccgcatcttc tctcttcgtt gccgctttgt gagcgaccac
2551 atcgacgtag agctcggcgt cgccgacgcc acctctcgct tcacaattcg
2601 acatacacca gggcatttcg agctcgtcgc cgatgattac agtcttccgg
2651 ctctcgtcgg cgcctccacc atccctggcg ctgatctcgc cgagtcctgc
2701 aagcgcttcg tcgcctccga tcgcaccgtc ctcccttttc gcgacgtcca
2751 cattcatcgc accagcgtca agcgagccaa aaacctcatc tccaacatga
2801 agaacggctt tgatggggtc atggctcagg cgaacccact tgaccccaag
2851 agcgcccgcg aacgcttcct catgctcgat tcttgtctcg acatcgctgc
2901 gccccgcgtc gtcaggctga tccacatcgc aggcttcgcc ggttgcggga
2951 aatcctggcc cgtcgcccaa ctcctgaaga cccctgcctt ccgcacgttc
3001 aaactcgccg tccccacgac cgagctgaga gacgagtgga aaggcctcat
3051 ggagcctcgg gaccaggaca agtggcgttt cggcacctgg gagtcctcat
3101 tgctcaagtc agcgcgcacc ctcgttattg acgaggttta caagatgccg
3151 cgtggctacc tcgacctcgc cattcacgcc gacgcctcta ttcagttcgt
3201 gattctcctc ggcgacccca tccaaggcga gtatcactcg actcacccca
3251 gctcgtccaa cgctcggctt tctccagagc acgtttatct ccgcccttac
3301 atcgacttct actgcttctg gagccgtcgc atcccacagt acgtcgccac
3351 cattctcggg gtcccttcca cttcaaaggt ctccggctac gctaggcatt
3401 ccagccagtt cccgctcaac ggcaagatcc tcatctcagc catgacctca
3451 gcgaaaagcc ttgtcgattg cgggtaccag gccatcacca tcgccagcag
3501 tcaaggatcc accgtcaacg gccccgttca tatccacctt gataatcatg
3551 cccgccgtct ctctcaccag cattctctcg tcgccatcac ccgatcccga
3601 gccggcctag tcttcaccgg cgatccctcc gtggccgacg gcacctcatc
3651 ctccaacctg ctcttctccg cagtcctcat gaatcacccc atctcggttc
3701 gatccctctt cagtgcgctg ttgcctcgct gccctttcgt ggagtcccca
3751 cccacttctc ggtccgtgct cctccgtggc gccggctacg gctcagcccc
3801 tcctctccgc ccaagagaga gcccgccaat gcgtcctgac tttcagggcg
3851 acgtcatagc cgatctttcc gcccccttcc tcggtgatgg ctcatccaac
3901 gcaccgcaag tcagtaccca cttcctgccg gagtcgcgtc gcccgctcca
3951 ctttgacgtc ccttccgccc gacatcaagt ggctgaccat cctctcaagc
4001 ccgaccactc ggcctgcgcg atagagccag tctaccccgg cgaaagcttc
4051 gagcaactgg ccgctctctt cttgcctcct acggacgctg aaagcaagga
4101 aatccgattt cgcggcgagc tctcaaacca atttccccac ctcgacaagc
4151 cgttcgaaat cagcgcccag ccatcgagtc ttctcgcgcc agtgcacaac
4201 tccaagcatg accccacgct tctgcccgcg tccatagcca agagactgcg
4251 gttccgacac aatgactctg cctacaccat ctcggctcgc gacgaaattt
4301 tggggggtct tctatatgag gcctggtgcc gcgcctaccg tcgctccccc
4351 ctggatatcg aaccgtttga ccccgtgctt tacgccgagt gcatcaacct
4401 caacgagttc gcccagctct cctcaaaaac tcaggccacc atcatggcca
4451 atgcaaacag gagtgacccc gactggcgct ggtcagccgt tcgcatcttt
4501 gccaagactc agcacaaagt caacgagggc tctctctttg gctcctggaa
4551 ggcctgccag actcttgctc taatgcacga cgccgtcgtg ctcctccttg
4601 ggcctgtaaa gaagtatcag cgcgttttcg accagcgcga tcgtccctct
4651 cacttgtacg tccacgccgg tcacaccccg tttgagatgg ccgagtggtg
4701 ccagcagcac ctgacccccg ccatcaagct cgccaacgac tacacggcct
4751 ttgaccagtc tcagcacggc gaagctgttg tcttcgagcg tttcaagatg
4801 tcccggctgt cgatccctca agagctcata gatctgcacg tctacctgaa
4851 gactaacgtc tcgacgcagt tcggcccatt aacctgcatg cggctcaccg
4901 gtgaacctgg cacatacgac gacaacactg actacaacat tgctgtgctg
4951 catctcgagt acgccgttgg ttccacccct ctcatggtct ccggcgatga
5001 ctcgcttctc gatagcgagc ctcccgttcg agaccagtgg gccgccgttg
5051 agccgatgct cgctcttacc ttcaagaaag aacgcggtcg ctacgccacc
5101 ttttgcggct actatgtcgg cttcacaggc gctgtgcggt ctccacccgc
5151 cctctttgcc aagctcatga tcgccgtgga cgacgagtcg atcgacgaca
5201 agctcatcgc ctacctcacc gagttcacgg tgggccattc tcttggcgac
5251 gccttctgga ccatcctccc cgtcgagacc gtcccttacc agagcgcgtg
5301 tttcgacttc ttctgccgac gcgccccagc gcaagccaaa gtcatgctaa
5351 ggcttggtga ggctcccgag tctctcctgt ccatggcttt ccaaggcttg
5401 aaatgggcgt cccactccgt ctacgccctc atgaactcga gtcaccgtcg
5451 ccagctcctc cacagctctc gccgtcctcg ctctctcccc gaagaccctg
5501 aggtctctca gcttcagggt gaattgcttc accagttcca atctctccac
5551 ctgccgctcc gaggagcttc catgccaaat ccgctcgctg cgccctttcg
5601 cctcctgcct ctcggttcag cctccctcgg cccatcttac tccgtggcgc
5651 ctctccagcc tccgcctgcc tctgagtccc ccgactcaat ggccgaaaat
5701 gccacgcaag tcgggcccgc tccagctcgc gatgaccgcc ttgatcgcca
5751 gcctgctatt cctgctcctc ctcgtgtggt tgaaaccgcg ccgacgcact
5801 acatcgacct cccgttccag tggaaaatca ccgacttcac cggagccgca
5851 gcctaccacg acacaggcga cctctcagcc tccccggtac tgacgactct
5901 gtgcgcccca taccgacacg ccgagctcat ctcagttgag ctctcgctcg
5951 ccccctgccc gccgtccttc accaagccca tcatgttcac cgtcgtctgg
6001 acgccggcca ctctctcacc caccgatggg aaagagacgg acttctacgg
6051 aggccgtcaa atttccatcg gcggtccggt catgctctct agcaccaccg
6101 ccatcccagc cgacctcact cgtatgaacc ccgtcatcaa gtcgagcgtc
6151 gcctaccgtg acacccctag gtggaccatg tccgtccccg ccgtctctgg
6201 cggtgacacc aaggtcaacc tcgccaccgg cttcatccgg ggagtcatcc
6251 gcgtctccgc tccatccgga gccgccatca aggccgcctc ttaggcgcct
6301 cccgcgagaa ggaaaactcg cccggctata ggccggtaag atgttaaacc
6351 tccagccctc cgtgatcgca aaatcttagg taacaggtcg gccacaagac
6401 ctgtgggcaa aaaaaaaaaa aaa