Typing tool
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Typing tool
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Complete norovirus genomes
| MT731332 | GII.7 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6701
ORF3: 6701..7474
LOCUS MT731332 7553 bp RNA linear VRL 13-JUL-2020
DEFINITION Norovirus GII isolate Hu/US/2018/GII.7[P7]/CA-RGDS-1096, complete
genome.
ACCESSION MT731332
VERSION MT731332.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7553)
AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P.,
Barclay,L., Vinje,J. and Morales,C.
TITLE Direct Submission
JOURNAL Submitted (07-JUL-2020) Viral and Rickettsial Disease Laboratory,
California Department of Public Health, 850 Marina Bay Parkway,
Richmond, CA 94804, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.6; Geneious v. R10
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7553
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/US/2018/GII.7[P7]/CA-RGDS-1096"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA: California"
/collection_date="Jan-2019"
/note="genotype: GII.7[P7]"
gene 5..5098
/gene="ORF1"
CDS 5..5098
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QLE10651.1"
/translation="MKMASNDASAAFGSQNSVNDSNNATPSNKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSSDQHCPTVKIGPKTLTIPPEPPNGEDIVQFDAKSETIIGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTALLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKS
VKTLEDLKVALRDVKFNECEIIYKSSKYRVSSNGKGSVSVDKVEDNASQTVNEVHSAL
LRLRQARARYYISCFQDLVYTLIQVAGASFVVSRISRRFCWERWIKPTETQEVNESEK
EVAQGRWEVEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEIKQIQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSVLVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVERGPSLQQVMRDQLRPFTEPRG
KPPRPAILEEAKKTVMNVLEQIIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide 5..1006
/gene="ORF1"
/product="p48"
mat_peptide 1007..2104
/gene="ORF1"
/product="NTPase"
mat_peptide 2105..2623
/gene="ORF1"
/product="p22"
mat_peptide 2624..3022
/gene="ORF1"
/product="VPg"
mat_peptide 3023..3565
/gene="ORF1"
/product="Pro"
mat_peptide 3566..5095
/gene="ORF1"
/product="RdRp"
gene 5079..6701
/gene="ORF2"
CDS 5079..6701
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QLE10653.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLIAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
AGDTSHPFRQWALPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRVQ"
gene 6701..7474
/gene="ORF3"
CDS 6701..7474
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QLE10652.1"
/translation="MASAFFANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKHLQQEMINIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
TRYWAPGAMRTTGYSGTFTHLPPVQSASYVNNQIRQPLKVDPSPSSSSGSSVSSVKTQ
STTLSGTSRVGSSSQSTLSTRSGTRTSDWVRSQNERLSPYMNGALQTAYVTPPSSRAS
TVSTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccttt ggcagtcaaa actctgtcaa
61 tgacagtaac aacgccaccc cttctaacaa agaagaggtt ggtgcattct ccaacattaa
121 agttggattc aagaaaatgc tgggtgccgt acccaagggc accaaagcac ccagcagtga
181 tcagcattgc cccacagtta agatcgggcc taaaacatta acaatccccc ctgagccccc
241 aaatggcgaa gacatcgtac agtttgatgc aaagtcagaa actataattg ggctaccgga
301 cttgacaacg gtgcaaaacg aacacgaaaa tactccatac actgtccctc cattgagtga
361 gagggagcac agaccggcca ctgaaccact tcctggcaca atattggaga tgtgggatgg
421 tgagttttat cattactccg tgtacgtcag cgatggcaag gctctagggg tccacaaacc
481 accggcggct ataagcctcg cgacgataga gctcaccccc atatcactct actggagacc
541 cgtttacacc cctaactacc tggtctcccc ggacacatta aagggcctcg ctggtgagaa
601 gtttccctac acggccttca gcaacaactg ttacaacttc tgttgctggg tgcttgagct
661 caacgataca tggcttaaca gaaggtgcat ttccagaact accggctttt tcaaaccata
721 tcagtcttgg aacaggaaac ccctcccaac cgttgatgat ggaaagatca agaaggtggc
781 caacgcaatc ctttgtgcac tcggctcgct attttcaaaa ccaattaagg atctgttagg
841 caaactcaag ccattgaatc tattacactt gcttgcgtcc tgtgattgga cgtttgcagg
901 tatagtagag acagtcatct taatggcgga actttttaat gtcttctgga ccccaccaga
961 tgtttctaat tttatagctt ccctgatagg tgattttgag ttgcaagggc ctgaagacct
1021 ggctgtggag ctcgtccccg tggttatggg tggcataggg atggttctcg gctttaccgc
1081 tgagaagata ggccgcatgc tgtcgtccgc tgcgtcaaca ctgcgggcgt gcaaagacct
1141 agggaattat gcccttgaca tactaaaatt agtcatgaag tggttcttcc caaagaagga
1201 agagaaagct gagatggaaa ccttgagggc gattgaagat gccgtcctag atatggaggc
1261 tatagggaat aaccacctca cagcccttct caaggacaaa gacagcctca cggctttcat
1321 gaagaccctg gatctggaag aagagaaggc gaggaaactg tccaccaaat catcttcacc
1381 ggacatagtt ggcaccatta atgccatact agctaggata gctgctgcta gatccctcct
1441 gcataaagct aaagaggaga tgttcagcag aatcagacca gtggtcgtta tgatctcagg
1501 cagacctggc attggaaaaa cccacatggc taggcacttg gctaagagca tcgccaacac
1561 catgagtggc gaccagagag tcggtctcgt tcctcgcaac ggtgtcgatc attgggacgc
1621 ctacaggggg gaaagggtgg tcttgtggga tgactacggt atggggagcc ctgttaaaga
1681 cgccctaaca ctgcaagagt tggccgacac gtgtccagtc actttaaatt gtgataggat
1741 tgagaataag gggaagatgt ttgatagtga tgtcatcata atcacgacca acctagtcaa
1801 tcccgcgccc ctcgactatg tgaactttga ggcgtgttct aggagagttg acttcctggt
1861 ctacgcagaa tcaccagaaa ttgaaaaggt caagagagac ttccctggcc agcccgacat
1921 gtggaaagac cattttaagc cagacttctc ccatattaag ctgactctag ccccccaggg
1981 tgggtttgac aaaaacggca acaccccaca cggtaagggt accatgcggt ccctaaccca
2041 gggatcccta accgcaagag ttgcaggtct tgtccatgag aggagagacg agtttcagct
2101 ccaaggaaat gacctacaaa catacaattt tgacaccaac agagtctccg catttagaaa
2161 attggctgca gacaacaagt atgggatcat ggagacgatg agagtcggtg cggcgctcaa
2221 gagcgtaaag accctggaag atctcaaagt tgcattgagg gacgtgaaat tcaacgagtg
2281 tgaaataatc tacaagagct ccaagtaccg agtctcctcc aacggtaaag gttcagtttc
2341 tgttgacaaa gttgaagaca atgcatccca gactgtgaac gaggtacatt cagcacttct
2401 cagacttagg caagcgaggg ccagatacta catcagctgt ttccaagacc tcgtttatac
2461 cctcatacag gttgccgggg catcattcgt tgtcagtagg atctccagaa ggttctgctg
2521 ggaaaggtgg atcaaaccga ccgagaccca ggaagtgaat gagtccgaaa aggaagtagc
2581 tcagggtaga tgggaagttg agcccaagga cacagaacca gaaggcaaga agggcaagaa
2641 caagaaagga aggggtaaga aacacacagc tttctctagt aaaggcctaa gtgatgaaga
2701 gtatgacgag ttcaagagaa tcagggaaga aagaaacggg aagtactcca ttgaggaata
2761 ccttcaagac cgagaccgct attatgaaga agtagcggtt gcccgggcga cagaggagga
2821 cttctgtgaa gaggaagagg ccaagataag acagagaatt ttccgcccca caaggaaaca
2881 gaggaaggag gaaaggggtg tgcttggctt ggtcaccggc tcagacatca gaaagaggag
2941 accagacgat tttcaaccaa aaggcaacct atgggcagat gacaccagaa gtgtggacta
3001 caatgaaagg cttgattttg aagcgccccc tagtgtttgg tcaagaatag tcccattagg
3061 cactggttgg gggttttggg tttcatccaa ccttctgatc acaacaacac acgtcctgcc
3121 taaagggatt aaggaactct ttggagttga aatcaaacaa atccaagtcc ataagtctgg
3181 agagttttgc aggtttagat tcccaagacc tatcaggcca gatgttacag gactagtgct
3241 ggaggaaggc gccccagagg gcactgtctg ttctgtgctc gtgaaaagac ccacaggtga
3301 gatgattccc cttgcagtga gaatgggcac acatgcatcc atgaaaatac agggcaggac
3361 cgttggtggc cagatgggaa tgctcctcac aggagcaaac gcgaagaaca tggatctcgg
3421 cactggccct ggcgactgcg gctgccctta catctacaaa cgtggcaacg acattgttgt
3481 cgcgggtgta cacaccgcag cagcccgggg aggcaacact gtcatatgtg ctacccaagg
3541 gcaagatggg gaagcagtcc ttgagggaaa tgaggacctt ggcacctact gtggagcccc
3601 aattctgggc cctggtaaag cgcctaaact cagcacgaag accaagttct ggcgctcatc
3661 accagatgcc ttaccacctg gcacatatga gcctgcttac ttaggaggca aagaccctag
3721 agtggaaaga ggcccctccc tgcagcaagt catgagagat cagttgaggc ccttcacaga
3781 acccagaggc aaaccaccta gacctgcaat cttagaggaa gccaaaaaga cagtgatgaa
3841 tgtcctagaa caaatcattg accccgccaa gccatggtcc tactcgcagg catgtgcctc
3901 actggacaaa accacctcta gtggtagtcc ccatcacgtt aagaaaaatg accactggaa
3961 tggggagtcc ttcactggtc cccttgcaga tcaggcatcc aaagccaacc tcatgtatga
4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactc aaggatgagc ttgttaagac
4081 tgacaagatc tacaagaaga taaagaagag gctcctatgg gggtcagacc ttggcacaat
4141 gatcaggtgc gctagggctt ttggtggtct tatggacagc atgaaggcaa gctgtatagc
4201 tcttccttgt agggtaggaa tgaatatgaa tgaagatggc cccatcatat ttgacaaaca
4261 ctctaagtac aggtaccact atgatgctga ctattctagg tgggattcaa cccaacaaag
4321 gagcattctt tctgccgcta tggaggtgat ggtgcggttc tctgctgaac cagaactagc
4381 acaagtggtt gcagaggacc ttttggctcc tagccagctc gatgttggcg attttgtcat
4441 ctcagtccag gagggcttgc catcaggagt tccatgtaca tcgcaatgga attcaatagc
4501 acattggata ctgactttga gtgcgatggc agaagtgtca ggtctctcac cagatgttgt
4561 ccaagctcac tcttgttttt cattttacgg ggacgatgag atcgtcagca ctgacattaa
4621 ccttgacccc atgaagctaa cacaaaaact cagagagtat ggtctggttc ccacccggcc
4681 tgataaaact gaaggtcccc tcgtcataac tgaagacctc accggcctga cgtttctacg
4741 taggtcaatt gcccgggacc cagctggctg gtttggaaaa ttggaccagg attcaatcct
4801 caggcaactg tactggacaa gggggcctaa ccatgagaac ccgtatgaga gcatggttcc
4861 tcattcccag agggccacac aactcatggc ccttcttggt gaggcctcac tacatggtcc
4921 ccagttttac aagaaggtta gcaaaatggt catcaatgaa atcaaaagtg gtggtctgga
4981 gttttatgtg cccagacaag aggccatgtt cagatggatg aggttctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg
5101 cagctccatc taatgatggt gcagcaggcc tcgtaccaga gatcaacaat gaggtcatgc
5161 cccttgagcc cgtggctggt gcatcgctgg cgacaccagt tgttgggcaa caaaatataa
5221 ttgatccctg gataagaaat aattttgtgc aagctcctgc aggtgagttt acagtctccc
5281 ctagaaattc ccctggtgaa attttgcttg atttggagtt gggaccagaa ttgaacccct
5341 atcttgctca tctggcccgt atgtataatg ggcacgctgg tggcatggaa gtgcaaattg
5401 tgttggctgg gaacgcgttc acagctggca agatcatatt tgctgccatc cctccagggt
5461 tcccatatga aaatttgtca ccctcacaaa ttacgatgtg tcctcatgtt ataattgatg
5521 ttagacaatt agaaccagtc ctgttgccta tgccagacat taggaacaat ttcttccatt
5581 ataatcaggg taatgatcca aaattgagat tgatagccat gctttacact cctttaaggg
5641 ctaacaattc tggtgatgat gtgttcacag tttcttgcag ggtcctcact aagccgtcac
5701 ctgattttga attcacattc ttagttcccc ctactgttga atctaagacc aagcagttca
5761 cattgcccat cctcaaaata tcagagatga ccaattcaag attcccagta ccagtggaaa
5821 tgatgtacac agccaggaat gagaaccaag ttgtccagcc acagaatgga agggtcacac
5881 ttgatggcga gctattgggc accacaccct tgttggcagt taacatctgc aagttcaagg
5941 gagaggtgat agctaagaac ggagatgtga gatcctatag gatggacatg gaaatcacca
6001 acaccgatgg caccccaatt gaccccacag aagacacacc tggccctatt ggttcacctg
6061 acttccaagg catactcttt ggcgttgcga gccagcgcaa caagaatgaa caaaaccccg
6121 caacgagagc ccatgaagct aacattaaca ctggtgggga ccagtatgct cccaaattgg
6181 cccaagtgaa attcttctca gagtcccagg atttcgaggt gcaccaaccc acagtcttca
6241 ccccggttgg tgtggcaggt gacacttccc accctttcag acaatgggcc ctgcctcgat
6301 acggtggaca tctgaccaat aacacccatt tggctccagc agtggcccct ttattcccag
6361 gtgagcagat tctgttcttt agatcccaga tacctagctc aggcggtcat gaattaggtt
6421 acatggactg cctcgtccca caagaatggg tccaacactt ctatcaagaa gctgccacag
6481 ctcagtctga ggtggcactc ataaggttca tcaacccaga cactggcaga gtcctttttg
6541 aggccaagct gcataagcaa ggctttataa ctgtggctca cactggtgat aacccaattg
6601 tcatgccacc aaatgggtac tttagatttg aagcttgggt caatcagttt tattcacttg
6661 cccccgtggg aactgggaat gggcgcagga gggttcaata atggctagtg ctttctttgc
6721 aaatttggca ggaggcgtcg cctccaatgg aattagttca ctcataaatg ctggggctaa
6781 tgctattaat caaaaagttg agtttgacta taacaaacaa ctccaaaatg catctttctc
6841 ccatgataaa gaaatgctcc aagcccaaat tgaagccact aaacatctac aacaagagat
6901 gattaacata aaacaagggg tgctgacagc tgcggggttc tctcctacgg atgccgcaag
6961 gggctctgtc ggtgcgccaa tgacaaaatt agttgattgg agcggcacta gatattgggc
7021 acctggtgcc atgaggacga caggttattc agggactttc acccacttgc cccctgtgca
7081 gtctgcttca tatgttaata atcaaattag acaacccctt aaagtagatc cttctccctc
7141 ttcttcgagt ggttcctctg tttcctctgt caaaacacaa tcaactaccc tctcgggcac
7201 ttcaagggtg ggctcttcat ctcagtcaac cctgtcaacc aggtcgggta caaggacttc
7261 agattgggtg cgtagccaaa atgagaggtt gagcccttac atgaatggag cgctgcaaac
7321 agcgtatgta acaccaccat ctagtagggc atcaactgtc agcacagtct cgaccgtgcc
7381 gaaagaggtt ttggactcct ggacgcctat gtttaacact cacaggcagc cgctcttcgc
7441 ccacctccgt aggcgagggg agtcacagat ttagtgaaaa gattggttag gaaagtttga
7501 ttagtttgtt cttttctttt actgttcctt taattctttc ttttaaaaaa aaa
//