Typing tool
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Typing tool
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Complete norovirus genomes
| MN996298 | GII.8 | |
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| GII.P8 |
ORF1: 1..4692
ORF2: 4673..6286
ORF3: 6286..7059
LOCUS MN996298 7064 bp RNA linear VRL 15-JUL-2020
DEFINITION Norovirus GII isolate SCD1061_4 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MN996298
VERSION MN996298.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7064)
AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q.
TITLE Whole Genome Analysis for Co-Infected Different Genotypes of Human
Norovirus
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7064)
AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q.
TITLE Direct Submission
JOURNAL Submitted (28-JAN-2020) School of Agriculture & Biology, Shanghai
Jiao Tong University, 800 Dongchuan Rd. Minhang Dist, Shanghai
200240, China
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC genomics workbench v. 12
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7064
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="SCD1061_4"
/isolation_source="asal swab"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="China: Shanghai"
/collection_date="18-Feb-2018"
/note="genotype: GII.8[P8]"
gene <1..4692
/gene="ORF1"
CDS <1..4692
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHQ73452.1"
/translation="MWDGEFYHYAIYVSGGKAIGVHKPPAAISLATIELTPISLYWRP
VYVPNYLVHPDTLKSLAGEKFPYTAFSNNCYNFCCWVLDLKDSWLNRRSITRTTGFFK
PYQSWNKKPLPTVDDGKIKKVANAVLCALGSLFSKPIKDLIGKLKPLNFLNLLASCDW
TFSGVVETVILAAELFGVFWTPPDVSNFIASLVGDFELQGPEDLAVELVPIIMGGIGM
VLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEMETLRAIE
DAVLDMEAIGNNHLTALLKDRDSLLTYMKTLDLEEEKARKLSTKSSSPDIVGTINAIL
ARIAAARSLLHRAKEEMYSRPRPVVVMISGRPGVGKTHMARHLAKSVAGTMSGDQRVG
LIPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALALQELADTCPVTLNCDRIENKGKM
FDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPTIEKAKKDFPGQPDMWKEH
FKADFSHLKLTLAPQGGFDKNGNTPHGKGTMKTLTQGSLTARVAGLVHERKDEFQLQG
GELQVYNFDTNKVSAFRKLAADNNYGFLETMRVGSSLKDVKTVEDLKCALKSVSFKEC
EIIYRNVKYRISSDGCGKVSIEKLADNNSQTTREIVTAVTRLRQARARYYISCFQDLV
YTLLQVAGASFVINRIVKKFNWERWVKAPETDEPTPGNGKPDTEEDWEIAPKDVDSEG
KKGKNKKGRGRKHTAFSSKGLSDEEYDEFKRLREEKQGRYTIEEYLHDRDRYYEELAV
ARATEENFCEEEEIKIRQRIFRPTKKQRKEERGVLGLVTGADIRKRKPDDFQPKGKLW
ADDSRSVDYNEKIEFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGIKELFGV
DIKQVQVHKSGEFCRFRFPKPVRPDVSGLVLEEGAPEGTVCSVLIKRSTGEMIPLAVR
MGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDIVVAGVHT
AAARGGNTVICATQGPDGEAVLEGGEDHGTYCGAPILAPGKAPKLSTKTKFWRSSPDS
LPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPSVLEEAKKTVMNV
LEQTIEPAKPWTYSQACASLDKTTSSGSPHHVRKNEHWNGESFTGPLADQASKANLMY
EEGKHMDPMYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMVRCARAFGGLLDSMKES
CISLPCRVGMNINEDGPLIFEKHSKYTYHYDADYSRWDSTQQRAVLSAAMEVMVKFSA
EPELAQVVAEDLLAPSRLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTLSAMSEVS
GLSPEVVQANSCFSFYGDDEIVSTDINLDPEKLTRKLREYGLVPTRPDKTEGPLVITQ
DLNGLTFLRRTIVRDPAGWFGKLDRDSILRQLYWTRGPNHENPFESMIPHSQRATQLM
ALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTWEGDRNL
APENVNEDGVE"
mat_peptide <1..597
/gene="ORF1"
/product="p48"
mat_peptide 598..1695
/gene="ORF1"
/product="NTPase"
mat_peptide 1696..2217
/gene="ORF1"
/product="p22"
mat_peptide 2218..2616
/gene="ORF1"
/product="VPg"
mat_peptide 2617..3159
/gene="ORF1"
/product="Pro"
mat_peptide 3160..4689
/gene="ORF1"
/product="RdRp"
gene 4673..6286
/gene="ORF2"
CDS 4673..6286
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHQ73453.1"
/translation="MKMASNDAAPSNDGAAGLVPEINHEVMAIEPVAGASLAAPVVGQ
LNIIDPWIRNNFVQAPAGEFTVSPRNAPGEFLLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKILFAVIPPGFPYENLSPAQLTMCPHVVVDVRQLEPILLPMPD
IRNTFFHYNQSNGPKLRLVAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFEFNFLVPP
SVESKTKAFTLPILKISEMTNSRFPIPVDQMYTSRNENIVVQPQNGRVTLDGELQGTT
TLQPVSICGFRGTLQTRLADQPNYTYQVHLENLDGSPVDPTDEVPAPLGTPDFQAQLF
GVVSQRSSDNATRAHEARVNTNDPTFAPQIAQVRFKSPSHDFFDNEPIKFTPVGISVD
SENSYNQWLLPRYGGHLTNNTHLAPSVSPMFPGEQILFFRSFMPGASGHTDGAIDCLL
PQEWVAHFYQEAATAQTDVALIRFVNPDTGRVLFEGKLHKQGFITISNSGDHPIVMPA
NGYFRFEAWVNQFYSLAPVGTGSGRRRVQ"
gene 6286..7059
/gene="ORF3"
CDS 6286..7059
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHQ73454.1"
/translation="MAGAFLAGLAGDVVTSGIGSLINAGANAVNQKVEYDFNRQLQEA
SFKHDKEMLNAQINATTKLQRDMIAIKHGVLTAGGFSPTDAARGSINAPTTKILDWNG
SRYWAPGSMRTTAYSGNFISQGVKQPTPIVRSVKPQVQQSPAPSSVYSVGSVRSQSTQ
STQLTGSGTVSRAPTPSTITTLSRTSEWVRSQNDRLSPFMGGALQTAFITPPSSKASS
SSGTVSTVPREILDSWTPAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atgtgggatg gtgagttcta ccattatgcg atatatgtct ctggtggcaa ggccataggg
61 gtgcacaaac ccccagccgc aatcagcctt gccactatcg agcttacacc tatatcgctt
121 tactggaggc ccgtttatgt ccctaattac ttggtccacc ctgacacact caagagctta
181 gctggtgaaa aatttccata caccgcattt agcaacaatt gttacaattt ctgttgctgg
241 gttcttgacc tgaaagactc gtggctcaac cgcagatcaa taactagaac aaccggtttc
301 ttcaagcctt atcaatcctg gaacaagaaa ccacttccga cggtggatga tggaaaaatc
361 aagaaagtcg ccaatgcagt cctgtgcgcc cttggttcac tattctcaaa acctattaag
421 gacttgatcg ggaagctgaa gccactgaat ttcttgaatc tcctcgcttc gtgcgactgg
481 accttctccg gagtggttga gaccgtcata ctagctgctg agctgtttgg tgtgttttgg
541 accccccccg acgtgtcgaa tttcatcgcg tcactcgtcg gggattttga gctgcagggt
601 ccagaggatt tagctgtgga gttggtaccg atcatcatgg gcggtatcgg gatggtgctg
661 ggattcaccg ccgagaagat cggccgaatg ctatcatcag ctgcatcgac ccttagggcc
721 tgtaaagacc taggcaacta cgcccttgac atacttaaat tggtcatgaa gtggttcttc
781 ccaaagaagg aggaaaaggc agagatggaa accttgaggg ctatagagga tgctgtctta
841 gacatggagg cgattggaaa caatcacctc actgctctgt tgaaagacag ggacagcctc
901 ctaacttaca tgaagactct agaccttgaa gaagaaaagg cgagaaagct gtccacaaag
961 tcatcgtccc ctgacatcgt gggtaccatc aatgccatac tagccagaat tgccgcggct
1021 aggtctctcc tgcacagagc caaggaagaa atgtacagca gacctaggcc tgtcgtggtg
1081 atgatatcag gaagaccagg ggttggtaag acccatatgg ctagacacct cgccaagagc
1141 gtggcgggca ccatgagcgg tgaccaaagg gtgggcctca tcccccgcaa tggagttgat
1201 cattgggatg cctacagggg agaacgagtt gtcttgtggg acgactatgg catgggtaac
1261 ccagtgaagg atgccctcgc tctgcaagaa ctagcagaca cttgtccagt caccctcaat
1321 tgtgacagga tagagaataa ggggaagatg tttgacagcg aggtaataat cataacaact
1381 aatttggcca accccgcccc gcttgattat gtcaactttg aagcttgttc ccgcagaatc
1441 gacttcctcg tctacgcaga agccccgacc attgagaagg cgaagaagga ttttcccggg
1501 caaccagaca tgtggaagga gcacttcaaa gcagacttct ctcatctcaa actcacactg
1561 gccccgcaag gcggttttga caagaacggc aacacgccac atgggaaggg gactatgaag
1621 accttaacac agggttccct cacagcaaga gtggctgggc ttgtgcacga aaggaaagat
1681 gagtttcagt tacagggtgg agaattgcag gtctacaatt ttgacacaaa caaggtatcg
1741 gctttcagga agcttgctgc agacaacaac tatgggttcc tggagacaat gagagtcggc
1801 tcctcactca aggacgtcaa gacagtggaa gatcttaaat gtgcccttaa gagtgtcagt
1861 ttcaaagaat gtgaaataat ctataggaat gttaagtacc gcatatcatc agacggttgc
1921 ggtaaggtca gcatagagaa actggcagat aacaactccc aaacaaccag agagattgtc
1981 acggccgtca ctagactacg acaagctcgt gctaggtatt acatcagctg cttccaagac
2041 ctagtctaca cactcttgca ggttgccgga gcctcatttg tcattaacag aatagtcaag
2101 aagttcaact gggaacgatg ggtcaaggct ccagaaacag atgaacccac accaggtaat
2161 ggcaagcccg acactgaaga ggattgggag atcgccccca aagatgtgga ctctgagggt
2221 aaaaagggga agaacaagaa gggcagggga cgtaagcaca ctgcattctc cagcaaaggg
2281 cttagtgatg aggagtatga tgaattcaaa agactaaggg aagagaaaca gggccgctac
2341 acaatagagg agtacctcca tgacagggac cggtactatg aagagctggc agtggcccgg
2401 gccactgagg agaacttctg tgaagaggaa gagataaaga tcaggcaaag gatattccgc
2461 cccaccaaaa agcagaggaa agaggagcgc ggggttctgg gactcgtcac aggagcagac
2521 atcaggaaac ggaaacccga tgacttccaa ccaaaaggaa aattgtgggc agatgattct
2581 aggagcgtcg attacaatga gaagatcgag tttgaagctc ctcctagcgt ctggtcaaga
2641 atcgtcccgc ttgggactgg ttggggattc tgggtctcat ccaacttact aattaccacc
2701 acacatgtgc tgcccaaagg tattaaagag ctttttgggg tggacatcaa acaagtccaa
2761 gttcacaaat caggtgaatt ttgcagattc aggttcccaa aaccagtgag gccagatgtc
2821 tctgggttgg tgttagaaga aggggccccc gaaggcacag tgtgctctgt tctcatcaag
2881 aggtctacag gagagatgat cccccttgca gttaggatgg gcacccacgc ctctatgaag
2941 attcaggggc gcactgttgg cggccagatg ggcatgctgc tcactggagc caacgctaag
3001 aacatggatt tgggtaccgg ccccggggat tgtggttgcc cgtatatata caagaggggc
3061 aatgacatcg tggtggccgg cgtccacaca gcagcagcgc gcgggggcaa cacggtcatt
3121 tgcgcaaccc aaggacctga tggtgaggca gtgttggaag ggggagagga ccacggtact
3181 tactgtggag ccccaatact ggcccctggt aaagcgccga agcttagcac aaagaccaag
3241 ttttggcgct catcccctga ttcccttccc cctgggacgt atgaaccagc ttaccttggg
3301 ggcaaggacc cccgtgtgga gaaagggccg tcactccaac aagtgatgcg agaccaactc
3361 aaacccttca cagagcccag gggcaagcca cctaggccgt cagtgctgga ggaagccaag
3421 aagacagtca tgaatgtgct ggagcagacc atagaaccag ctaagccatg gacctactct
3481 caagcctgtg cttcattgga taaaacaaca tccagtggca gtccccacca tgtcaggaag
3541 aatgaacact ggaacgggga gtcttttact gggcctcttg cagatcaagc ctcaaaagcc
3601 aacctgatgt atgaggaagg taaacatatg gaccctatgt acacagcagc cctcaaggat
3661 gagctggtaa aaactgacaa aatttataag aaaatcaaga agaggctgtt atgggggtct
3721 gatctgggga caatggtgag gtgtgctcga gcgtttggag gattgctcga cagcatgaaa
3781 gagagttgca tttccttacc ttgtagggtt ggcatgaaca taaatgaaga tggaccactc
3841 atatttgaaa aacattccaa atacacctat cactatgatg ctgattactc taggtgggac
3901 tcaacacaac agagggctgt actgagtgca gctatggagg taatggtgaa gttctccgct
3961 gagccggaac tggctcaggt ggttgccgaa gacctccttg cacccagccg tcttgacgtg
4021 ggtgactttg tcatctctgt tcaagaaggt ctcccatcgg gtgtcccctg tacgtcacag
4081 tggaactcaa ttgctcattg gattttgact cttagtgcta tgtctgaggt ttctggtctt
4141 tcccctgagg ttgtgcaagc caactcctgt ttctcattct atggggatga tgagatagtc
4201 agcacagata taaatctgga cccagaaaaa ctcaccagga aactgaggga atatggcctc
4261 gtcccaacaa ggccagacaa aactgagggc ccacttgtga ttactcagga tttgaatggt
4321 ctcacatttc tgaggcggac catagtgcgg gaccccgcag gctggtttgg aaaactggac
4381 cgtgattcca ttctaaggca gttatactgg accagaggac ccaatcatga gaaccccttt
4441 gaaagcatga ttcctcactc ccagagagca acccagttaa tggcccttct tggggaagcc
4501 tcgttgcatg gtccccagtt ttacaagaag gtgagtaaaa tggtcatcaa tgagatcaag
4561 agtggtggtc tggagttcta cgtgcccaga caggaggcca tgtttagatg gatgagattt
4621 tcagacctca gcacgtggga gggcgatcgc aatctggctc ccgagaatgt gaatgaagat
4681 ggcgtcgaat gacgcagctc catcgaatga tggcgcggct ggcctcgtac cagagatcaa
4741 ccatgaggtc atggccatag agcctgttgc aggagcctct ttagcagctc ctgtcgtagg
4801 acaacttaat ataattgatc cctggattag aaataatttt gtgcaagccc ctgctggaga
4861 attcactgtt tcgcctagga atgctccagg tgaattttta ttagatctag agttaggtcc
4921 agaattgaat ccctatcttg ctcaccttgc acgcatgtat aatgggcatg caggtggtat
4981 ggaggtgcag atagtgcttg ctgggaatgc gttcacagcg ggcaaaatac tgtttgcagt
5041 cataccgcct ggattcccct atgaaaattt gtcacctgca caattgacca tgtgcccaca
5101 tgtagtagtg gatgtgaggc agcttgaacc aatcttgctg cccatgccag acatccgcaa
5161 tacattcttc cattacaacc agagcaatgg gccaaaactt agattagtag ctatgcttta
5221 cacaccccta agggctaaca atgctggtga tgatgtcttc acggtttcct gcagggtttt
5281 gactcgccca tcaccagatt ttgaattcaa ttttcttgtc cccccatctg ttgaatctaa
5341 gactaaagct ttcacccttc caattcttaa gatatctgag atgacaaatt caagatttcc
5401 cataccagtt gatcagatgt acactagtag gaatgaaaat atagttgttc aaccacaaaa
5461 tggcagggtg acacttgatg gagagctaca gggcacaacc acactccaac cggtgtccat
5521 ttgtggcttc cgagggacgc tgcagaccag gctggcagat caaccaaatt acacatacca
5581 agtgcacctt gagaatttgg acggctcacc cgtcgacccg acagatgaag ttccagcccc
5641 cctggggaca ccagattttc aggcccagct atttggagtt gtcagccaaa ggagtagtga
5701 taatgccacc agggcacatg aggctagggt caacaccaac gatcccacct tcgcgcccca
5761 gatcgcccag gtgcgtttca aatcaccatc ccacgacttc tttgacaatg aacccatcaa
5821 attcacacca gttggaatca gtgttgatag cgaaaacagc tacaaccaat ggctcctacc
5881 caggtatggt ggacacctga caaacaacac ccacctggcc ccctctgtgt ccccaatgtt
5941 ccccggcgag cagattctct tcttccgctc gttcatgcca ggtgccagtg gtcacactga
6001 tggtgctatt gactgccttt taccacaaga gtgggttgcc cacttctatc aggaggccgc
6061 aactgcgcaa acagatgtgg ctctgattag atttgtgaac cccgacacag gcagagtgct
6121 atttgaaggg aagttacaca agcagggttt tataaccatc tccaacagcg gggaccaccc
6181 cattgttatg cctgctaatg gatacttcag gtttgaggca tgggtcaacc aattttactc
6241 tctcgccccc gtgggaactg gaagtgggcg cagaagagtt caataatggc tggagctttt
6301 cttgctggtc tggctggtga tgtggtgacc tctggcatcg ggtcgctcat caatgcaggt
6361 gctaatgcag taaaccagaa ggttgaatat gacttcaata ggcaactcca agaagcttct
6421 tttaaacatg acaaggagat gttgaatgct caaattaatg ccacaaccaa attgcaaagg
6481 gacatgattg ccattaagca tggggttttg accgctggcg gcttttcccc cactgatgct
6541 gcaaggggtt ccatcaatgc tccaaccacc aaaattcttg actggaacgg atctaggtac
6601 tgggcaccag gatcaatgag aacaacagcg tactctggca attttatatc gcagggagtt
6661 aagcagccca cacccattgt tagatctgtg aaacctcaag tacagcaatc tcctgcccct
6721 tcttctgttt attctgtagg ttctgttagg tcacaatcaa cacaatcaac tcagttaaca
6781 gggtcaggga ctgtatcaag ggcacccacc ccctcaacaa tcacaacact gtccagaaca
6841 agtgagtggg tgaggagcca gaatgatagg ttgagcccct ttatgggagg cgcactccag
6901 acagctttca tcacgccccc atcgagtaag gcttcatcct catcaggaac agtctcaacc
6961 gttcctagag aaattttgga ctcctggact cctgcattta acacgcgcag gcagccgctc
7021 ttcgctcaca tacgtaagcg aggggagtca cgggtttagt gaaa
//