Typing tool
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Typing tool
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Complete norovirus genomes
| MT357898 | GI.7 | |
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| GI.P7 |
ORF1: 1..5397
ORF2: 5381..7000
ORF3: 7000..7647
LOCUS MT357898 7732 bp RNA linear VRL 25-APR-2020
DEFINITION Norovirus GI isolate Hu/US/2017/GI.7[P7]/Pennsylvania1060
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MT357898
VERSION MT357898.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7732)
AUTHORS Chhabra,P., Husband,B., Montmayeur,A.M., Tatusov,R.L., Barclay,L.
and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (17-APR-2020) Division of Viral Diseases, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. 11.1.2; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7732
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="Pennsylvania1060"
/isolate="Hu/US/2017/GI.7[P7]/Pennsylvania1060"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/geo_loc_name="USA"
/collection_date="17-Jun-2017"
/note="genotype: GI.7[P7]"
gene <1..5397
/gene="ORF1"
CDS 1..5397
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJC14576.1"
/translation="MMMASNDAIAAADVSKQNANTNNENIGSRLMARLKERISSQRGE
GTTKIKSTEMALDLIRRSQTPSPTRSDPPPKAQRDRPPRTVSEVKQVLGWDGPTGKDY
GARAWCDLTAEEKKEILDNNERLFDAGGVTPSTVPSTFERCETPERADGCHPVKWSES
AGVDLGVDSLTTVTGPVWNMCPLPPIDSRNNGPASEPRIGDMIEFYEGHIFHYAIYLG
QGKTIGVHSPQAAFSIARITIHPMAAWWRVCYEPTDQQRLSYDQLKELENEPWPYASI
TNNCYEFCCRVMSLDDTWLQRKLVTSGRFNHPTQEWSKETPDFHQDSKLEIVRDAILS
AINGLVSQPFKNILSKIKPLNLLSLLSNCDWTFMGVVELVVLLAELFDIFWTPPDISN
FIASLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQLG
QYGLEVFSIIKKYFFGGDQTEKTLKGIENAVIDMEVLSSTNVTQLVRDKKLAKTYMNI
LDNEEEKARKLSVRSADPHVVTTVNNLISRISMARSALAKAQAEMTNRARPVVIMMCG
PPGIGKTKAAEHLANRLAGEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKIT
EDCNKLQAIADTAPLTLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRRV
DFLVYCTAPEIEQTRRAHPGDTNAIKNLFKTDFSHLKMEIAPQGGFDNQGNTPFGRGA
MKSTTLNRLLIQAVALTMERQDEFQMQGAVYNFDEDRVTAFTSLARANGLGLLSMAAL
GKKLRSVNNMEGLRNALKGYKITECDIVWNNRTYTIKGDGSNVSVIEKQVTATLQQQA
ISSVTLALSRLRAARALAYASCLQSAVTTILQMAGSAVVISRAVKRMFGTHTNQPALE
GKPREHNCRVHRAEREGRGPIGHDGIIERYGLCETDQEEEEKIEMEVPTADKEGKNKG
KNKKGRGRKNNYNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAEV
QAGGDGGIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLVTGTEIRKRKPIDWTPPK
NDWSEDTRQVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVVPPSAKEI
FGEKLSDIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMVKRDSGELLPL
AVRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCG
VHAAATKSGNTVVCAIQSGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKS
TPQPLPPGTYEPAYLGGRDPRVDGGPSLQQVLRDQLKPFAEPRGRLPEPSLLEAAVET
VTNVLEQTMDTPVPWSYSDACMSLDKTTSSGFPHHKRKNDDWNGSAFVRELGEQAAHA
NNMYELGKSVKPVYTAALKDELVKPEKVYTKIKKRLLWGADLGTVIRAARAFGPFCEA
IKPHVIKLPIKVGMNAIEDGPLIYAEHAKYKYHFDADYTAWDSTQNREIMLESFNIMC
KLTANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCAL
SEVTGLAPDVLQAQSYFSFYGDDEIVSTDVEFDPIKLTQVLKEYGLKPTRPDKSEGPI
IVKQQIDGLVFLRRTISKDAVGYQGRLDRNSIERQLWWTRGPNHDDPFETLIPHQQRK
IQLISLLGEAALHGEKFYRKIANRVIQEVKEGGLELYIPGWQAMFRWMRFHDLSMWTG
DRNLLPDYVNDDGV"
mat_peptide 1..1212
/gene="ORF1"
/product="p48"
mat_peptide 1213..2301
/gene="ORF1"
/product="NTPase"
mat_peptide 2302..2901
/gene="ORF1"
/product="p22"
mat_peptide 2902..3321
/gene="ORF1"
/product="VPg"
mat_peptide 3322..3864
/gene="ORF1"
/product="Pro"
mat_peptide 3865..5394
/gene="ORF1"
/product="RdRp"
gene 5381..7000
/gene="ORF2"
CDS 5381..7000
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJC14577.1"
/translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAAA
TAGQVNLIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLHLGPHLNPFLQHLSQMYNG
WVGNMRVRVMLAGNAFTAGKIIICCVPPGFASQNISIGQATMFPHVIADVRVLEPIEI
PLDDVRNVLYHTNENPPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPAPDFNFL
FLVPPSVEQKTRQLTVPNIPLNNMANSRVPAMINKMTVSADQNQVVQFQNGRCTLEGQ
LLGTTPVSASQVARIRGKVFSTASGKGLNLTELDGTPYHAFESPAPLGFPDIGACDWH
VSTFKVDQNLSGDPMSRLDIKQNAPFAPHLGSIEFTSDQDPTGDQLGTLAWVSPSTSG
TRVDPWKIPSYGSTVTESTHLAPPIFPPGFGEAIVYFMSDFPIVSGTTAQVPCTLPQE
FVSHFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFVTCVPNTGGGPQNLPTNG
VFVFSSWVSRYYQLKPVGTAGPARRLGVRRV"
gene 7000..7647
/gene="ORF3"
CDS 7000..7647
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJC14578.1"
/translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN
SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIVGAPVTKIVDWNG
VRIAAPTSTATTLRSGNFMNIPVTLKKEPQNLPPRSTGFSNPNYDSSTMISRTTQWVE
SQNSIRNLSPFHTSALRTTWVTPPGSTSTSTFSTVSSAPRFFNTERLPLFANNRK"
ORIGIN
1 atgatgatgg cgtctaacga cgctattgcc gctgctgatg tcagcaaaca aaatgctaac
61 accaacaacg aaaacatcgg ttctcgcctt atggcgagac tgaaagagcg tataagctct
121 caacgtggtg agggaaccac gaaaatcaag agtactgaaa tggcactgga cctaatacgc
181 aggtcccaaa caccatcgcc aacgcgctcg gacccccctc ctaaggcgca gcgcgatcgc
241 cctccgagga ctgtgtcaga agtcaagcag gttttaggat gggatggccc tactggtaag
301 gattatgggg cccgagcatg gtgcgactta acagctgaag aaaagaagga aatcctggac
361 aacaacgagc gccttttcga cgctggtggt gtgactcctt caacagtgcc aagcaccttt
421 gagagatgtg aaacacctga gcgagctgac ggctgccatc ctgtcaaatg gagcgagtct
481 gcgggagtgg atttaggcgt ggattccctg accactgtca caggcccagt gtggaacatg
541 tgcccccttc caccgattga ttcacgtaac aatggccctg ctagtgagcc acgcattgga
601 gatatgatag aattttatga agggcacata tttcattatg ccatatatct tggtcagggg
661 aagaccatag gagtccactc ccctcaggca gccttctcca tagctcgtat aaccatacac
721 cctatggcag catggtggcg tgtctgctat gagccaacag accagcaacg cctcagctat
781 gaccaattaa aagaacttga gaatgaaccg tggccctatg catccataac gaacaactgt
841 tatgaattct gctgccgtgt catgtccctg gacgacacct ggttacaacg aaagttggta
901 acatccggta ggtttaatca ccccacccag gagtggtcca aggaaacacc tgatttccat
961 caagattcaa aattggaaat agtgagagac gcaatactat ccgccataaa cggcttggtt
1021 tctcaacctt tcaagaatat cctctcaaaa attaagccat tgaatttgtt gtctttgcta
1081 tcaaattgtg actggacttt catgggggtt gtcgagctag tggtgctatt ggctgagttg
1141 ttcgacatct tctggacccc acctgatatc tccaacttca tagcatctct tctacctgac
1201 tttcacctgc aagggccaga ggatttggca agagacctgg tcccattgat attggggggt
1261 atcggcctgg ctattggctt tactagagac aaaattacaa aagtcatgaa gagtgccgtt
1321 gatggcctgc gctcagccac gcagcttgga caatatggcc ttgaggtgtt ttcgatcata
1381 aagaaatatt tctttggtgg agaccaaact gagaaaaccc tcaagggcat agagaatgca
1441 gtcatagaca tggaggtcct gtcgagtacc aatgtcacac aactggtgcg cgacaagaaa
1501 ttggccaaaa catacatgaa tatcctggac aatgaggagg aaaaggcaag gaaactttca
1561 gtgcgcagtg cagacccaca tgttgtaaca acagtcaaca acctcatttc gcgcatatct
1621 atggcgcgat cagcacttgc caaggctcaa gctgagatga ctaaccgggc acgccccgtg
1681 gtcataatga tgtgcgggcc accaggtata ggaaagacca aagctgctga acacctggcc
1741 aatcgcctag ctggtgagat aagacctggg ggaaaagtgg gcttagtgcc tagagaatcc
1801 attgaccatt gggatggtta ccatggggaa gaagtcctgt tgtgggatga ctatggtatg
1861 tccaagataa cagaggactg caataaatta caagctatag ctgacactgc cccactcaca
1921 ctcaactgtg acaggataga gaataagggc atgcaatttg tgtcagatgc aataataata
1981 acaacgaatg cccctgggcc agctcccgtc gactttgtta accttggtcc agtttgtcga
2041 cgtgtagact ttttggtgta ttgcaccgcc cccgaaattg aacagaccag gagggcccac
2101 cctggggaca ccaatgctat caagaatttg tttaaaacag acttttccca tttaaaaatg
2161 gagatagcac cacaaggggg gtttgataat caaggaaaca ccccttttgg gaggggtgct
2221 atgaaatcaa ccacactcaa taggctactc atacaggcag tcgccttgac gatggaaaga
2281 caagacgagt tccaaatgca gggggcagtg tacaactttg atgaggatcg ggttacagct
2341 ttcactagcc tggcccgagc caacggactg gggcttttga gcatggctgc actcggtaaa
2401 aagttgcgga gcgttaacaa catggaggga cttcgcaacg ccctcaaagg gtacaagatc
2461 actgagtgtg acattgtgtg gaacaacagg acttacacca ttaaaggaga tggatcaaat
2521 gtgagtgtca tagaaaagca ggtaactgcc actcttcagc agcaagccat cagctcagtt
2581 actctggcac tttctaggtt gcgcgccgca cgagcgctgg cgtatgcatc atgtctccag
2641 agcgcagtga ccaccatctt gcaaatggct gggtctgcag tggtgatcag cagggcggtc
2701 aaacgcatgt ttgggaccca caccaaccag ccagcactgg aaggcaagcc cagagaacac
2761 aactgcaggg tccaccgggc tgaaagggaa ggtcgtggcc ccattggtca tgatggcatc
2821 atagaacggt acggtctgtg tgagactgat caagaagaag aagaaaagat cgagatggaa
2881 gtgccgactg cagacaagga aggtaagaac aaaggcaaga acaagaaggg gcgaggtagg
2941 aagaataact ataacgcctt ctctaggcga ggcctaagtg atgaggagta tgaagaatac
3001 aagaaggtta gagaagagaa gggtggtaac tacagcatcc aagaatacct cgaggaccgt
3061 caacgatatg aagaagagtt ggctgaggtc caagcgggtg gagatggcgg gatcggtgaa
3121 acagaggcag agatccgcca tcgtgttttc tacaaatcca agagtggcat gcgaaagcaa
3181 cgtcaagaag aacgccgaca gcttggattg gttacaggca ctgaaatcag aaaacgcaag
3241 cccatagatt ggacaccacc caagaatgat tggtcagaag acaccagaca ggttaactat
3301 gatgagcaca tcagctttga agccccacct tctatttgga gtagggtggt caaatttggc
3361 agtggatggg gtttttgggt gagttcaaca gtttttatca caaccacaca cgttgtacca
3421 ccaagtgcta aagaaatttt tggggaaaaa ctttcagata tagcaataca cagagttggg
3481 gagttcacac aatttagatt ctctaagaaa atgagacctg acctcagtgg tatggtcctt
3541 gaagaaggtt gcccggaggg aacggtgtgc accataatgg tgaagagaga ttcaggtgaa
3601 ttgttacctc tagctgtgcg catgggagct gtcgcgtcca tgaagataca aggtaagctc
3661 atgcatgggc agtctggtat gttgctaacc ggtgcaaatg caaagggaat ggacctgggc
3721 accatccctg gtgactgtgg agctccatac gtgcataaaa ggggaaatga ctgggtggtg
3781 tgtggagtgc atgctgccgc aaccaagtca ggcaacaccg tagtgtgtgc aatacaatca
3841 ggtgaaggtg aagctaccct tgaagggggt gggcaaaaca aagggcatta tgcaggccat
3901 ccaattttaa ggtatggcaa tgggccctcc ctctccacaa aaaccaaatt ctggaaatca
3961 accccccaac cactcccgcc tggaacctat gaaccagctt acctaggtgg gcgtgaccct
4021 agggtagatg gaggtccatc ccttcaacaa gtcctacgtg accaactcaa gccatttgct
4081 gagccccgtg gtagactgcc agaaccgagc ttgctcgaag cagctgtgga gactgtcaca
4141 aatgttttag aacaaacaat ggacacacct gtgccatgga gctacagtga tgcctgtatg
4201 tcacttgata agaccaccag ctcgggcttt ccacaccaca aacgcaagaa tgacgattgg
4261 aacggaagtg cgtttgtgcg tgagcttgga gaacaggcgg cccatgccaa caacatgtat
4321 gagttgggta aatcagtcaa gccggtttac accgcagcac tcaaggatga actggtgaaa
4381 cccgagaaag tgtacacaaa aataaagaag agactgcttt ggggcgcaga ccttggcaca
4441 gtcattcgag ccgcccgagc ctttggtcca ttctgtgaag ccataaaacc acatgtgata
4501 aaactgccaa ttaaagttgg catgaatgca attgaggacg gccccctcat atatgctgaa
4561 catgcaaagt ataaatatca ctttgatgca gactacacag cttgggattc aacccaaaat
4621 agagaaatca tgttagaatc cttcaacatc atgtgcaaac tcacggctaa tccgtcactg
4681 gctgccgtcg tggctcagga cctgttatcc ccatcagaaa tggacgtggg tgattacgtg
4741 atcagtgtca aggatggcct tccctcaggg ttcccatgca cctcacaggt caatagcata
4801 aaccactgga tatacactct gtgtgctctg tcggaagtca caggcctagc ccctgacgtt
4861 ctgcaggccc aatcctactt ctccttctac ggagatgatg aaattgtctc aactgatgtg
4921 gaatttgacc caataaagct cacccaagtg cttaaggaat atggcttgaa gcccacccgg
4981 cctgacaaat cggagggacc catcatagtg aaacaacaga tagatgggct agttttcctg
5041 aggcgcacta tatcaaaaga tgctgtcggt taccaaggac gcctggaccg taactccatt
5101 gaaagacaat tatggtggac tcggggcccg aaccatgatg atccctttga gacattgata
5161 ccccatcaac aaagaaagat ccaactaatt tccctgcttg gtgaagccgc acttcatgga
5221 gaaaaattct ataggaagat tgccaacaga gttatacagg aagtcaagga gggggggctt
5281 gagctctata taccgggttg gcaggccatg ttccgctgga tgcgattcca tgacttgagt
5341 atgtggacag gagatcgcaa tctcttgccc gattatgtaa atgatgatgg cgtctaagga
5401 cgccccctca aacatggatg gcactagtgg tgccggtcag ctggtcccag aggttaatgc
5461 agctgaacct ttaccccttg aaccggtagt gggcgccgca actgcggctg ccactgctgg
5521 acaagttaat ttaatagacc cctggattat gaataatttt gttcaagccc ctgagggtga
5581 gtttaccatc tcacctaata acacccctgg agatattctg tttgatctgc atctaggacc
5641 acaccttaat ccctttttgc agcatttatc ccaaatgtac aatggttggg tgggcaatat
5701 gagagttaga gttatgcttg cagggaatgc gttcactgcc ggtaagatca taatttgttg
5761 tgtcccacct ggctttgcat cccaaaatat atcaattggc caggccacta tgttcccaca
5821 tgtcatagct gatgtgagag tgctggagcc tatagaaatc cctcttgatg atgtgcgcaa
5881 tgtcttgtac cacaccaatg agaaccctcc caccatgcgg ttgctttgca tgctatacac
5941 accccttcgt gctggtggtg cttcatcggg cacggacccc tttgtcattg cgggtcgtgt
6001 attaacttgc cctgcccctg attttaattt cctgttcctt gtacccccta gtgtagagca
6061 gaaaaccagg cagttgactg tgcccaacat acccctgaac aatatggcca attccagagt
6121 gcccgcaatg ataaacaaga tgacagtttc tgctgatcag aaccaggtgg tccaattcca
6181 gaatggtcgt tgcacacttg aaggacagct cttgggcaca actccagttt cagctagcca
6241 agtggcccgc atacgtggca aagtcttttc caccgcatct gggaaaggac tcaatctgac
6301 tgagttggat ggaacccctt accacgcatt tgagagccca gccccccttg gtttccctga
6361 catcggagcc tgtgattggc atgtgtcaac ctttaaagtg gatcagaacc tttcaggaga
6421 ccctatgtcc aggttagata taaaacaaaa tgccccgttt gcaccacacc ttggttccat
6481 tgaattcaca tctgatcagg acccaactgg ggatcaattg ggaacattgg cctgggtttc
6541 cccttccact agtggaacta gggtagaccc ctggaaaatt ccatcatatg gttcaacagt
6601 gacagaatcc actcatctgg caccacccat atttccacca ggctttggcg aggccatagt
6661 ttattttatg tcagattttc ccattgtctc aggcaccact gcccaagtcc cctgcactct
6721 gccccaggaa tttgtctcac actttgtgga gcaacaggca ccgattcgag gagaagctgc
6781 cctgcttcat tatgtggacc cagacactca ccgtaatcta ggagagttca aattgtaccc
6841 tgatggattt gtcacctgtg tgccaaacac aggtggtggt cctcaaaatt tacctacaaa
6901 tggagtcttt gtcttttctt cctgggtttc taggtattac caattaaagc ctgtgggaac
6961 agccggtccg gctaggaggc ttggtgtcag aagggtataa tggcccaagc cattatagga
7021 gctattgccg ccaccgctgc tggcagcgcc gtgggggcag gtatccaggc tgggacagaa
7081 gcagcccttc aataccagag gtttcaacaa gatcttacac tacaagagaa ctcatttaaa
7141 catgatgaaa gaatgctagg tttgcagatt gagggatcta acgctttact acaaaagaac
7201 ctttctactc gctataatct tttggttggt gcaggtcttt cttcagctga cgctgcaaga
7261 tccatcgttg gggcccctgt gacaaaaatt gtggactgga acggagtgag gattgctgcc
7321 cctacgtcca ctgccactac actccgatct ggcaatttta tgaatatacc agtcacactc
7381 aaaaaggagc ctcaaaactt gccgccacgc tctacgggct tttctaatcc taattatgat
7441 tcatctacaa tgatttctag gacaactcag tgggtagagt cacaaaattc aatcaggaat
7501 ttatcgcctt tccatacctc agccctgagg accacctggg tgacccctcc tggttctact
7561 tctacttcta ctttttctac tgtttcttct gcgccacggt tctttaacac cgagcgcctc
7621 cctctgttcg caaacaatag gaaatagttt ttgtaatata atgtgggcat catattcata
7681 tttaattttg ttgatttggc ttaattagct aattagattt gaattggatg tt
//