Typing tool
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Typing tool
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Complete norovirus genomes
| LC509011 | GII.11 | |
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| GII.P11 |
ORF1: 1..4640
ORF2: 4624..6267
ORF3: 6267..7031
LOCUS LC509011 7076 bp RNA linear VRL 27-DEC-2019
DEFINITION Swine norovirus SwNoV/Sw1/2018/JP genes for RNA-dependent RNA
polymerase, capsid protein, VP2 small basic protein, partial and
complete cds.
ACCESSION LC509011
VERSION LC509011.1
KEYWORDS .
SOURCE Swine norovirus
ORGANISM Swine norovirus
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Okada,A.
TITLE Near-complete genome sequence of a Swine Norovirus
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7076)
AUTHORS Okada,A. and Inoshima,Y.
TITLE Direct Submission
JOURNAL Submitted (12-NOV-2019) Contact:Ayaka Okada Gifu University,
Veterinary Medicine; 1-1 Yanagido, Gifu, Gifu 501-1193, Japan
FEATURES Location/Qualifiers
source 1..7076
/organism="Swine norovirus"
/mol_type="genomic RNA"
/strain="SwNoV/Sw1/2018/JP"
/host="Sus scrofa domesticus"
/db_xref="taxon:70297"
/geo_loc_name="Japan: Gifu"
/collection_date="2018-07-09"
CDS <1..4640
/codon_start=3
/product="RNA-dependent RNA polymerase"
/protein_id="BBO93740.1"
/translation="LGVHKPAAAICLATIELTPISLYWRVVYTPQNSIPIDSLRRLAG
ERFPYTAFDNNCYTFCCWVLDLNDSWLSRRMVTRTTGFFRPYQDWNTRPVPTVDDSKL
KKVANVILCGLTSLFSRPIKDIIGKLKPLNLINILATCDWTFGGIVESLVLVGELFGI
FWTPPDVTSFLASILDDFQLQGPEDLAAEVVPVLMGGLGLVLGFTTEKVGRMLSSAAA
TLRACKDLGAYGFDILKLVVKWFFPKKEEQAELEMVRSIEDAVLDPEALENNHLTTLL
KDKDSLTAFMKTLDMEEEKARKLSTRSSSPDIVGTINALLARISAARSLLHKAREELC
ARIRPVVVMISGRPGIGKTHMARHLAQKVAAAIGGDKRIGLVPRNGVDHWDAYKGERI
VLWDDYGMSNPIKDALTLQELADTCPVTLNCDRIENKGKLFDSDIIVITTNLTSPAPL
DYVNFEACSRRVDFLVYAESPDVEKVKKEFPGQPDMWKDAYQQDHSHIKLQLAPQGGF
DKNGNTPYGKGVMKTLTQNSLVARVAALVHERADEFALQGDDLPLYNFDVDKINSFRK
MAADNRYGFFETMKVGAALKNVDSIEGLRTALKGVTLKPCKVVYKGTIYQIESGRGGL
TIKKLEDRYAQSSGSLFGVLTRVRQARAKYYLKCFQELIYTTLQIAGAAFVTSRIVKR
SNWCNSWRQTAEPSTSTPIEEPPLAQPQVWEVTPAAADQEGKKGKNKKGRGKKHTAFS
SKGLSDEEYDEYKRIREEREGKYSIEEYLRDRDRYYEELAIAQATEENFAEDDEMRLR
QRIFRPTKKQRREERATLGLVSGTEIRKRKADDFQPKGKLWADDSREVDYNETINFEA
PSSIWSRVVPFGTGWAFWVSPSLLITTTHVVPRDTTEIFGVPIAQIQVHKSGEFCRLR
FPRPMRTDVSGLILEEGAPEGTVCTILIKRSSGELLPLAVRMGTHATMKIQGRTIGGQ
MGMLLTGANAKNMDLGTSPGDCGCPYIYKRGNDFVVAGVHTAAARGGNTVVCATQGPD
GEATLEGGENHGTYCGAPILGPGKSPKLSTKTKFWRSSTAPLPPGTYEPAYLGGRDPR
VENGPSLQQVMRDQLKPFTAPRGKPPKPSILESAKDTIVNFLEQTLEPAKKWSYSQAC
QSLDKTTSSGDPHHVRKNDHWNGETFTGPLADQASKANLLYEQGKHAQPVYTAALKDE
LVKTEKIYGTVKKRLLWGSDLGTMIRCARAFGGLMEEMKENCILLPIRVGMNMNEDGP
AVFERHARHTYHFDADYSRWDSTQQRGILAAALDIMVKFSAEPELAQVVAEDLLAPSV
LDVGDFRISIVEGLPSGVPCTSQWNSFAHWLITLCAMSEVTGLSPDVIQAHSCFSFYG
DDEIVSTDITLDPNMLTEKLKEYGLKPTRPDKTEGPLVIQKNLSGLTFLRRTIVRDPA
GWFGKLDKDSILRQLYWTRGPNHEDPMETMVPHSQRAIQLMALLGEASLHGSNFYGKV
SRMVINEIKEGGLEFYVPRHEAMFRWMRFSDLSTWEGDRNLAPSGVNEDGV"
CDS 4624..6267
/codon_start=1
/product="capsid protein"
/protein_id="BBO93741.1"
/translation="MKMASSDAAPSTDGSAGLVPEVNNETMALEPVVGAPLAAPVAGQ
HNIIDPWIKMNFVQAPNGEFTVSPRNAPGEILLDLELGPDLNPYLSHLARMYNGYAGG
MEVQVVLAGNAFTAGKIIFAAVPPNFPAENLSAAQVTMCPHVIVDVRQLEPVMLPMPD
IRNKLFHYNQVDDPKLRLLAYLYTPLRANNAGDDVFTVSCRVLTRPTPDFEFMFLVPP
TVESKTKPFSLPSLTLDELSNSRFPAPIVQLYTNPHDNLVVQPQNGRCTIDGLLQGTT
QLVSCNVCSLRGTLGDGQPASHSEEDIMPMAFNVQREIMLENLDGTPYDPADDIPAVL
GSPDFQGVIFGILSQRNTDGQTRAHEAKVDTRAARFAPKLGFVVATVESTDFHANQPS
RFTPVGLGGDGDRDFDQWRLPAYGGALTNNTNLAPPVMPVYPGEQLLFFRSQLPSSGG
VVGGWLDCLLPQEWVQHFFQESATSQSDVALVRYINPTTGRVLFEAKLHKQGFLTVAA
SGSYPLVVPADGYFRFESWVNQFYTLAPMGNGSGRRRAR"
CDS 6267..7031
/codon_start=1
/product="VP2 small basic protein"
/protein_id="BBO93742.1"
/translation="MAGQFLLGLATDLIGGGIGSLINAGANAINQKVEYDFNKKLQSS
SFAHDKEMLQAQVDATRQLQQDLIQLKQDTLLSAGYLPADAARGSLGVPMTKALDWNG
TRYWAPNSMGTSSYSGRFSSRPASNLTFQSPQPPRQPPKTPTPPSGSTSASSASSAST
VSTSLPSSSTTPSRLSRSSTTTDRTREWVNSQNLGPYMDGALRTAFVTPPSSRSSSVG
TVSTVPDFVLDSWTPSFNTRRQPLFAHLRRRGESQA"
3'UTR 7032..>7076
ORIGIN
1 ttttgggtgt gcacaagcca gcagctgcca tttgcctagc gaccattgag ttgactccga
61 tttccctcta ctggagagtc gtctacacac cccaaaactc tatccctata gactcattgc
121 gccgtctggc aggcgagcgc ttcccctaca cagcttttga caacaactgt tacaccttct
181 gttgctgggt cttggacctc aatgattcat ggctctctag gaggatggtc actaggacca
241 cgggtttctt tagaccctac caagattgga ataccagacc cgtccctaca gtggatgaca
301 gtaagctcaa gaaggttgcc aacgtgattt tgtgtggtct aacctccctc ttctccaggc
361 ccatcaaaga cataatcggg aagcttaagc ccctcaacct catcaacata ttggcaacct
421 gtgactggac ttttggtgga attgtggaat cccttgtctt ggtgggtgag ctttttggga
481 tcttttggac accaccggac gtcaccagct tccttgcttc aattttggat gatttccaac
541 tccagggccc agaggatcta gcagccgagg tcgtcccagt gcttatgggg ggccttggat
601 tagtccttgg cttcaccacg gaaaaagttg ggcgcatgct gtcgtccgct gctgcaactc
661 tgcgcgcttg caaggacctt ggggcctatg gctttgacat actgaaatta gtagtcaagt
721 ggttcttccc gaaaaaggag gagcaagccg agcttgagat ggtgcgctcc atagaggacg
781 ccgttttaga ccctgaggcg ttggaaaaca accatctcac aaccctgctc aaggacaagg
841 acagcctgac ggcattcatg aagaccctcg acatggagga agagaaggcg cggaagcttt
901 caacgcgctc gtcgtcacca gacattgttg gcactataaa cgccctactc gccagaatct
961 cggcagccag gtcgctcctc cacaaggccc gggaagagct ctgtgccagg atccgcccag
1021 tggtggtcat gatttctggc aggccaggta taggtaagac ccacatggcc cgccatttgg
1081 cacaaaaagt cgccgcagcc atcggtggtg acaaaagaat cggcttggtg cctaggaatg
1141 gtgttgacca ttgggacgcc tacaaagggg agcggatcgt cttgtgggac gactacggaa
1201 tgagcaaccc aatcaaagat gctttgacgc tccaggaatt ggccgacacg tgcccagtca
1261 ccctaaactg tgataggatt gagaacaagg gtaagctctt tgacagtgac atcattgtga
1321 taaccaccaa tttgaccagt cccgccccgc tcgactacgt caatttcgag gcttgttcca
1381 ggcgggtgga ctttctggtc tatgcagaat caccagatgt tgagaaagtg aagaaggagt
1441 tccctggcca gcctgacatg tggaaagacg cataccagca ggaccactca cacatcaaat
1501 tgcagctggc tccacagggg ggttttgaca agaacggtaa caccccttat gggaagggcg
1561 tgatgaagac gctcacccag aattcccttg tggcgcgcgt cgctgccctc gtccatgaga
1621 gagctgacga gttcgccctc cagggcgatg acctgcccct ctacaacttt gacgtggata
1681 agataaactc cttcaggaag atggctgccg acaacaggta tggattcttt gagacaatga
1741 aagtcggggc tgccctcaaa aatgtggact caatagaagg tctgagaact gctctcaaag
1801 gggtcactct gaaaccctgc aaggtggtct ataaggggac aatctatcag attgaatcag
1861 gccgcggcgg gctcacaatt aagaagctgg aggaccgcta cgcccagagt tctgggtccc
1921 tgtttggtgt gctcacgaga gtccgccagg cgagggccaa gtactacctt aagtgttttc
1981 aggagctaat ctacaccact ctgcaaattg ctggggccgc cttcgtgacg tcaaggatag
2041 tcaaaaggtc caactggtgc aattcctggc gacagacagc tgaacctagt acctcgaccc
2101 cgatcgagga accacccttg gcgcaacctc aagtctggga agtcacccct gctgcggctg
2161 atcaggaggg aaagaaaggg aagaacaaga agggccgtgg gaaaaagcac acggccttct
2221 ccagcaaagg gctcagtgat gaagagtatg atgagtacaa aaggataagg gaggaacgtg
2281 agggcaagta ttccatcgag gagtacctcc gagaccggga tcgttactac gaggagctgg
2341 ccattgcgca ggcaacagag gagaactttg cagaggatga tgaaatgaga cttcgccaaa
2401 ggatctttag gcccactaag aagcagagaa gggaagagag agccactctt ggcctagtat
2461 ctggtactga aatcagaaag aggaaggccg acgacttcca acccaagggg aaactctggg
2521 ccgatgacag ccgtgaggtc gactacaatg agaccatcaa ctttgaagcc ccctcgagca
2581 tctggtcgcg agtcgtcccc ttcggcaccg gctgggcgtt ttgggtgtca ccgagtctct
2641 taatcaccac cacccacgtc gtgcccaggg acacgacaga gatctttggt gtgccaatcg
2701 cacagatcca agttcataaa tcaggtgaat tttgccgcct aagattcccc cggcctatga
2761 ggaccgatgt tagcggcctg attctggagg agggtgcccc agagggcact gtttgtacca
2821 tccttattaa gagatccagt ggggagctcc tacccttggc agtgagaatg ggaacccacg
2881 ccaccatgaa gattcagggc aggacaattg gtggccagat gggcatgctc ctcactggcg
2941 ctaacgcaaa gaacatggac ttgggaacca gtcctgggga ttgtggctgt ccttacatat
3001 acaagagggg taacgatttt gtggttgcgg gggtgcacac ggccgccgca aggggtggca
3061 acacagtcgt ctgcgccact cagggccccg acggtgaggc caccttggag ggcggtgaaa
3121 accacggcac ctactgtggt gctccgatcc tgggaccagg gaaatccccg aaattaagca
3181 caaagaccaa attctggaga tcctccacgg ccccgctccc ccctggcacc tacgaaccag
3241 cctacttggg ggggagggat cctcgcgtgg agaacggccc gtcgttacag caagttatga
3301 gggatcaact caaacctttc accgccccca gaggaaagcc acctaaacca tctatcctag
3361 aatctgccaa agataccata gtgaacttcc tggaacagac ccttgaacct gccaaaaagt
3421 ggagttactc acaagcctgc cagtcattgg acaaaaccac ctctagcggt gacccccatc
3481 atgtgaggaa gaatgaccat tggaacggtg agaccttcac gggccctttg gcggatcagg
3541 cctcaaaagc taatctcctc tatgaacaag gaaaacacgc ccagcccgtt tacacggctg
3601 ccctaaagga tgagcttgtc aagactgaaa agatttatgg cacagtgaaa aagaggctcc
3661 tttggggttc agatttgggc acaatgatta ggtgcgcgcg tgccttcggg ggcttgatgg
3721 aggagatgaa ggaaaattgt atcttactgc caatcagagt tgggatgaac atgaacgagg
3781 atggaccagc tgtgtttgag aggcatgcgc ggcacaccta ccactttgat gcagactact
3841 cgcgatggga ctccacccaa cagagaggca tcctggctgc cgcgctggac atcatggtga
3901 agttttctgc tgagcccgag ttggcccagg tggtggcgga agacctcctc gcccccagtg
3961 tcctcgatgt tggtgacttc cgtatttcca ttgtggaggg tcttccctcc ggagttccgt
4021 gcacatcaca atggaattcc tttgcccact ggttgattac tctctgtgcc atgtcagagg
4081 taacaggcct ctcacccgac gtgatacagg cccattcctg cttttccttc tacggcgacg
4141 atgagatcgt gagcacagac atcaccttgg accccaacat gctcacagag aaattaaagg
4201 aatatggttt gaagccaact agaccagaca agactgaagg acccctagtg attcaaaaga
4261 acctgtcggg actgactttc ctgagaagaa caatagtccg cgacccggcc gggtggttcg
4321 gcaaacttga caaggactcc attctgaggc agctctactg gaccagagga ccaaaccatg
4381 aagaccctat ggaaactatg gtgccccact cacaaagagc aatacaactt atggccctcc
4441 tgggtgaagc ctcactacac ggttctaact tctatggcaa ggtgagtagg atggtgataa
4501 atgagatcaa agagggtggt ctggagtttt acgtgcccag acatgaggcc atgtttcgct
4561 ggatgcggtt ttcagacctc agcacgtggg agggcgatcg caatctggct cccagtggtg
4621 tgaatgaaga tggcgtctag cgacgctgct ccatctacgg atggatctgc cggtctcgta
4681 ccagaggtca acaatgagac catggcttta gaaccagtag tgggtgctcc tctcgccgcc
4741 cccgttgctg gccaacataa tattatagac ccctggatta aaatgaattt tgtacaggca
4801 cccaatggag agttcactgt ttccccccgc aatgccccag gtgagatttt gttagatttg
4861 gaacttggcc ccgatctcaa cccttatctt tcacatttgg cccgcatgta caacggctac
4921 gcaggtggca tggaggtgca agttgtgtta gctggcaatg ccttcaccgc tgggaagatc
4981 atttttgccg ccgttccacc gaactttccg gcggagaacc tcagcgcagc acaagtcacc
5041 atgtgtcccc atgtgatagt tgatgttaga caattggaac cagttatgct ccctatgcct
5101 gatatcagga ataagttgtt tcattacaat caagtggatg acccaaagct taggttgctg
5161 gcctatcttt acacacctct tcgggccaac aatgctgggg atgatgtctt tacagtttct
5221 tgtcgggttc ttaccaggcc aaccccagat tttgagttta tgtttttggt tcctcctact
5281 gttgaatcta aaactaagcc tttctctttg cctagtctta cccttgatga gctttccaac
5341 tctaggtttc ctgcacctat agtgcaactg tatacaaacc cccatgataa tttggttgtc
5401 cagccacaga atggaagatg taccatagat ggtctcctgc agggcaccac gcaacttgtg
5461 tcctgcaatg tctgtagtct cagggggacc cttggtgatg gtcagccggc cagccacagt
5521 gaggaggata tcatgcctat ggcctttaac gtccagcgag agatcatgct ggagaacctt
5581 gatggcacac cctatgaccc agctgatgac atccctgcag tactgggttc ccccgacttc
5641 cagggggtca tatttggcat cctcagccag agaaacactg atggacaaac cagggcacat
5701 gaggccaaag tggacaccag ggcagctcga tttgccccca aacttggctt tgtcgtggcc
5761 actgtggaga gcacagattt ccacgccaat caacctagca ggttcacccc tgttgggttg
5821 ggtggtgacg gtgaccgaga cttcgatcag tggcggttgc cagcttacgg tggtgcgctg
5881 acgaacaaca ccaaccttgc cccacccgta atgcctgtct atccagggga gcagcttctc
5941 ttcttccgct cccaactgcc cagctccggt ggtgtggttg gtgggtggct ggactgcctg
6001 ctcccccaag agtgggtcca acatttcttt caggagtcag ccacttccca aagtgatgtg
6061 gctctagtca ggtatataaa tcccaccaca ggcagggtgc tcttcgaggc gaagttgcac
6121 aaacagggtt ttctcactgt ggctgcttca ggttcttatc ctctggttgt tcccgctgat
6181 ggttacttta ggtttgagtc ttgggtgaat caattttata ctttggcccc catgggaaat
6241 ggtagtgggc gcaggagagc ccgttaatgg ctggacaatt tttattaggt ttagctacag
6301 atcttattgg gggtgggata ggttctttga ttaatgctgg tgctaatgct atcaatcaga
6361 aggttgaata tgattttaac aaaaagttgc agtcttcttc ttttgctcat gataaggaaa
6421 tgctgcaggc acaagtagat gcaactagac aactgcagca ggatttgatt cagttgaaac
6481 aagacactct cctctctgct ggttaccttc ctgctgatgc ggctagaggt tctcttggtg
6541 tgcctatgac caaggccctg gattggaatg gcacgaggta ctgggctccc aattctatgg
6601 gtacctctag ttattcgggg cgcttttcct ctcgccctgc ctcgaactta acctttcaga
6661 gcccacagcc tcctcgtcaa ccacctaaaa ctccaactcc cccttcaggg tccacgagtg
6721 cctcttcggc ctcgtctgct tcaactgtgt cgacgagtct tcctagttcc tccacaaccc
6781 cgtcgaggtt gtcaagatcc tcgaccacca cagataggac cagagagtgg gtgaattcac
6841 agaacttagg cccctatatg gatggtgccc tgcggacggc ttttgtgaca cccccgtcca
6901 gcaggagctc tagtgtcggc acggtctcga ccgtgccaga ctttgttttg gactcatgga
6961 ccccttcctt caacacaagg agacaaccac tctttgcaca cctgcgtagg cggggagagt
7021 cacaagctta acagcttagt gaaagatagg gttttctttt cttttctttc ttttct
//