Typing tool
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Typing tool
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Complete norovirus genomes
| MT357994 | GI.7 | |
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| GI.P7 |
ORF1: 5..5401
ORF2: 5385..7004
ORF3: 7004..7651
LOCUS MT357994 7651 bp RNA linear VRL 25-APR-2020
DEFINITION Norovirus GI isolate Hu/US/2018/GI.7[P7]/CS0087 nonstructural
polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MT357994
VERSION MT357994.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7651)
AUTHORS Randazzo,W., Houston,K., Montmayeur,A.M., Tatusov,R.L., Chhabra,P.,
Browne,H., 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..7651
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="CS0087"
/isolate="Hu/US/2018/GI.7[P7]/CS0087"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="USA"
/collection_date="23-Jun-2018"
/note="genotype: GI.7[P7]"
gene 5..5401
/gene="ORF1"
CDS 5..5401
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QJC14591.1"
/translation="MMMASNDAVAAADVSKQNANTNNENIGSRLMARLKERISSQRGE
GTTKIKNTEMALDLIRRSQTPSPTRSDPPPKAQRDRPPRTVSEVKQVLGWDGPTGKDY
GARAWCDLTAEEKKEILDNNERLFDAGGVTPSTVPSTFERCETPERADGCHPVKWSES
AGVDLGVDSLTTVTGPVWNMCPLPPIDSRNNGPASEPRIGDMIEFYEGHIFHYAIYLG
QGKTIGVHSPQAAFSIARITIHPMAAWWRVCYEPTDQQRLSYDQLKELENEPWPYASI
TNNCYEFCCRVMSLDDTWLQRKLVTSGRFNHPTQEWSKETPDFHQDSKLEIVRDAILS
AINGLVSQPFKNILSKIKPLNLLSLLSNCDWTFMGVVELVVLLAELFDIFWTPPDISN
FIASLLPDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQLG
QYGLEVFSIIKKYFFGGDQTEKTLKGIENAVIDMEVLSSTNVTQLVRDKKLAKTYMNI
LDNEEEKARKLSVRSADPHVVTTVNNLISRISMARSALAKAQAEMTNRARPVVIMMCG
PPGIGKTKAAEHLANRLAGEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKIT
EDCNKLQAIADTAPLTLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRRV
DFLVYCTAPEIEQTRRAHPGDTNAIKNLFKTDFSHLKMEIAPQGGFDNQGNTPFGRGA
MKSTTLNRLLIQAVALTMERQDEFQMQGAVYNFDEDRVTAFTSLARANGLGLLSMAAL
GKKLRSVNNMEGLRNALKGYKITECDIVWNNRTYTIKGDGSNVSVIEKQVAATLQQQA
ISSVTLALSRLRAARALAYASCLQSAVTTILQMAGSAVVISRAVKRMFGTHTNQPALE
GKPREHNCRVHRAEREGRGPIGHDGIIERYGLCETDQEEEEKIEMEVPTADKEGKNKG
KNKKGRGRKNNYNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAEV
QAGGDGGIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLVTGTEIRKRKPIDWTPPK
NDWSEDTRQVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVVPPSAKEI
FGEKLSDIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMVKRDSGELLPL
AVRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCG
VHAAATKSGNTVVCAIQSGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKS
TPQPLPPGTYEPAYLGGRDPRVDGGPSLQQVLRDQLKPFAEPRGRLPEPSLLEAAVET
VTNVLEQTMDTPVPWSYSDACMSLDKTTSSGFPHHKRKNDDWNGSAFVRELGEQAAHA
NNMYELGKSVKPVYTAALKDELVKPEKVYTKIKKRLLWGADLGTVIRAARAFGPFCEA
IKPHVIKLPIKVGMNAIEDGPLIYAEHAKYKYHFDADYTAWDSTQNREIMLESFNIMC
KLTANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCAL
SEVTGLAPDVLQAQSYFSFYGDDEIVSTDVEFDPIKLTQVLKEYGLKPTRPDKSEGPI
IVKQQIDGLVFLRRTISKDAVGYQGRLDRNSIERQLWWTRGPNHDDPFETLIPHQQRK
IQLISLLGEAALHGEKFYRKIANRVIQEVKEGGLELYIPGWQAMFRWMRFHDLSMWTG
DRNLLPDYVNDDGV"
mat_peptide 5..1216
/gene="ORF1"
/product="p48"
mat_peptide 1217..2305
/gene="ORF1"
/product="NTPase"
mat_peptide 2306..2905
/gene="ORF1"
/product="p22"
mat_peptide 2906..3325
/gene="ORF1"
/product="VPg"
mat_peptide 3326..3868
/gene="ORF1"
/product="Pro"
mat_peptide 3869..5398
/gene="ORF1"
/product="RdRp"
gene 5385..7004
/gene="ORF2"
CDS 5385..7004
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QJC14592.1"
/translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAAA
TAGQVNLIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLHLGPHLNPFLQHLSQMYNG
WVGNMRVRVMLAGNAFTAGKIIICCVPPGFASQNISIGQATMFPHVIADVRVLEPIEI
PLDDVRNVLYHTNENPPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPAPDFNFL
FLVPPSVEQKTRQLTVPNIPLNSMANSRVPAMINKMTVSADQNQVVQFQNGRCTLEGQ
LLGTTPVSASQVARIRGKVFSTASGKGLNLTELDGTPYHAFESPAPLGFPDIGACDWH
VSTFKVDQNLSGDPMSRLDIKQNAPFAPHLGSIEFTSDQDPTGDQLGTLAWVSPSTSG
IRVDPWKIPSYGSTVTESTHLAPPIFPPGFGEAIVYFMSDFPIVSGTTAQVPCTLPQE
FVSHFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFVTCVPNTGGGPQNLPTNG
VFVFSSWVSRYYQLKPVGTAGPARRLGVRRV"
gene 7004..7651
/gene="ORF3"
CDS 7004..7651
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QJC14593.1"
/translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN
SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIVGAPVTKIVDWNG
VRIAAPTSTATTLRSGNFMNIPVTLKKEPQNLPPRSTGFSNPNYDSSTMISRTTQWVE
SQNSIRNLSPFHKSALRTTWVTPPGSTSTSTFSTVSSAPRFFNTERLPLFANNRK"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgctgt tgccgctgct gatgtcagca aacaaaatgc
61 taacaccaac aacgaaaaca tcggttctcg ccttatggcg agactgaaag agcgtataag
121 ctctcaacgt ggtgagggaa ccacgaaaat caaaaatact gaaatggcac tggacctaat
181 acgcaggtcc caaacaccat cgccaacgcg ctcggacccc cctcctaagg cgcagcgcga
241 tcgccctccg aggactgtgt cagaagtcaa gcaggtttta ggttgggatg gccctactgg
301 taaggattat ggggcccgag catggtgcga tttaacagct gaagaaaaga aggaaatcct
361 ggacaacaac gagcgccttt ttgacgctgg tggtgtgact ccttcgacag tgccaagcac
421 ctttgagaga tgtgaaacac ctgagcgagc tgacggctgc catcctgtca aatggagcga
481 gtctgcggga gtggatttag gcgtggattc cctgaccact gtcacaggcc cagtgtggaa
541 catgtgcccc cttccaccga ttgattcacg taacaatggc cctgcaagtg aaccacgcat
601 tggagatatg atagagtttt atgaagggca catatttcat tatgccatat atcttggtca
661 ggggaagacc ataggagtcc actcccctca ggcagccttc tccatagctc gtataaccat
721 acaccctatg gcagcatggt ggcgtgtctg ctatgagcca acagaccagc aacgcctcag
781 ctatgaccaa ttgaaagaac ttgagaatga accgtggccc tatgcatcca taacgaacaa
841 ctgttatgaa ttctgctgcc gtgtcatgtc cctggacgac acctggttac aacgaaagtt
901 ggtaacatcc ggtaggttta atcaccccac ccaggagtgg tccaaggaaa cacctgattt
961 ccatcaagat tcaaaattgg aaatagtgag agacgcaata ctatccgcca taaacggctt
1021 ggtctctcaa cctttcaaga atatcctctc aaaaattaag ccattgaatt tgttgtctct
1081 gctatcaaat tgtgactgga ctttcatggg ggttgtcgag ctagtggtgc tattggctga
1141 gttgttcgac atcttctgga ccccacctga tatctccaac ttcatagcat ctctcctacc
1201 tgactttcac ctgcaagggc cagaggattt ggcaagagac ctggtcccat tgatattggg
1261 gggtatcggt ctggctattg gctttactag agacaaaatt acaaaagtca tgaagagtgc
1321 cgttgatggc ctgcgctcag ccacgcagct tggacaatat ggccttgagg tgttctcgat
1381 tataaagaaa tatttctttg gtggagacca aactgagaaa accctcaagg gcatagagaa
1441 tgcagtcata gacatggagg tcctgtcgag taccaatgtc acacaactgg tgcgcgacaa
1501 gaaattggcc aagacataca tgaatatcct ggacaatgag gaggaaaagg caaggaaact
1561 ttcagtgcgc agtgcagacc cacatgttgt aacaacagtc aacaacctca tttcgcgcat
1621 atctatggcg cgatcagcac ttgccaaggc tcaagctgag atgactaacc gggcacgccc
1681 cgtggtcata atgatgtgtg ggccaccagg tataggaaag accaaagctg ctgaacacct
1741 ggccaatcgc ctagctggtg agataagacc tgggggaaaa gtgggcttag tgcctagaga
1801 atccattgac cattgggatg gctaccatgg ggaagaagtc ctgttgtggg atgactatgg
1861 tatgtccaag ataacagagg actgcaataa attacaagct atagctgaca ctgccccact
1921 cacactcaac tgtgacagga tagagaataa gggcatgcaa tttgtgtcag atgcaataat
1981 aataacaaca aacgcccctg ggccagctcc cgtcgacttt gttaaccttg gtccagtttg
2041 tcgacgtgta gactttttgg tgtattgcac cgcccccgaa attgaacaga ccaggagggc
2101 ccaccctggg gacaccaatg ctatcaagaa tttgtttaaa acagactttt cccacttaaa
2161 aatggagata gcaccacaag gggggtttga taatcaagga aacacccctt ttgggagggg
2221 tgctatgaaa tcaaccacac tcaataggct actcatacag gcagtcgctt tgacgatgga
2281 aagacaggat gagttccaaa tgcagggggc agtgtacaac tttgatgagg atcgggtcac
2341 agcattcact agcctggccc gagccaacgg actggggctt ttgagcatgg ctgcactcgg
2401 taaaaagctg cggagcgtca acaacatgga gggacttcgc aacgccctca aagggtataa
2461 gatcactgag tgtgacattg tgtggaacaa caggacttac accattaaag gagatggatc
2521 aaatgtgagt gtcatagaaa agcaggtagc tgccactctt cagcaacaag ccatcagctc
2581 agttactctg gcactttcta ggttgcgcgc cgcacgagcg ctggcgtatg catcatgcct
2641 ccagagcgca gtgaccacca tcttgcaaat ggctgggtct gcagtggtga tcagcagggc
2701 agtcaaacgc atgtttggga cccataccaa ccagccagca ctggaaggca agcccagaga
2761 acacaactgc agggtccacc gggctgaaag ggaaggtcgt ggccccattg gtcatgatgg
2821 catcatagaa cggtacggtc tgtgtgagac tgatcaagaa gaagaagaaa agatcgagat
2881 ggaagtgccg actgcagaca aggaaggtaa gaacaaaggc aagaacaaga aggggcgagg
2941 taggaagaac aactataacg ccttctctag gcgaggccta agtgatgagg agtatgaaga
3001 atataagaag gttagagaag agaagggtgg taactacagc atccaagaat acctcgagga
3061 ccgtcaacga tatgaagaag aattggctga ggtccaagcg ggtggagatg gcgggatcgg
3121 tgaaacagag gcagagatcc gccatcgtgt tttctacaaa tccaagagtg gcatgcgaaa
3181 gcaacgtcaa gaagaacgcc gacagcttgg attggttaca ggcactgaaa tcagaaaacg
3241 caagcccata gattggacac cacccaagaa tgactggtca gaagacacca gacaggttaa
3301 ctatgatgag cacatcagct ttgaagcccc accttctatt tggagtaggg tggtaaaatt
3361 tggcagtgga tggggttttt gggtgagttc aacagttttt atcacaacca cacacgttgt
3421 accaccaagt gctaaagaga tttttgggga aaaactttca gatatagcaa tacacagagt
3481 tggggagttc acacaattta gattctctaa gaaaatgaga cctgacctca gtggtatggt
3541 ccttgaggaa ggttgcccgg agggaacggt gtgcactata atggtgaaga gagattcagg
3601 tgaattgtta cctctagctg tgcgcatggg agctgtcgcg tccatgaaga tacaaggtaa
3661 gctcatgcat gggcagtctg gtatgttgct aaccggtgca aatgcaaagg gaatggacct
3721 gggcaccatc cctggtgact gtggagctcc atacgtgcat aagaggggaa atgactgggt
3781 ggtgtgtgga gtgcacgctg ccgcaaccaa gtcaggcaac accgtagtgt gtgcaataca
3841 atcaggtgaa ggtgaagcta cccttgaagg gggtgggcaa aacaaagggc attatgcagg
3901 ccatccaatt ttaaggtatg gcaatgggcc ctccctctcc acaaaaacca aattctggaa
3961 atcaaccccc caaccacttc cgcctggaac ctatgaacca gcttacctag gtgggcgtga
4021 ccctagggta gatgggggtc catcccttca acaagtccta cgtgaccaac tcaagccatt
4081 tgctgagccc cgtggtagac tgccagaacc gagcttgctc gaagcagctg tggagactgt
4141 cacaaatgtt ttagaacaga caatggacac acctgtgcca tggagctaca gtgatgcctg
4201 tatgtcactt gataagacca ccagctcggg ctttccacac cacaaacgca agaatgacga
4261 ttggaacgga agtgcgtttg tgcgtgagct tggagaacag gcggcccatg ccaacaacat
4321 gtatgagttg ggtaaatcag tcaagccggt ttataccgcg gcactcaagg atgaactggt
4381 gaaacccgag aaagtgtaca caaaaataaa gaagagactg ctttggggcg cagaccttgg
4441 cacagtcatt cgagccgctc gagcctttgg tccattctgt gaagccataa aaccacatgt
4501 gataaaactg ccaattaaag ttggtatgaa tgcaattgag gacggccccc tcatatatgc
4561 tgaacatgca aagtataaat atcactttga tgcagactac acagcttggg attcaaccca
4621 aaatagagaa atcatgctag aatccttcaa catcatgtgc aaactcacgg ctaatccgtc
4681 actggctgcc gtcgtggctc aggacctgtt atccccatca gaaatggacg tgggtgacta
4741 cgtgatcagt gtcaaggatg gccttccctc agggttccca tgcacctcac aggtcaatag
4801 cataaaccac tggatatata ctctgtgtgc tctatcggaa gtcacaggcc tagcccctga
4861 cgttctgcag gcccaatcct acttctcctt ctacggggat gatgaaattg tctcaactga
4921 tgtggaattt gacccaataa agctcaccca agtgcttaag gaatatggct tgaagcccac
4981 ccggcctgac aaatcggagg gacccatcat agtgaaacaa cagatagatg ggctagtttt
5041 cctgaggcgc actatatcaa aagatgctgt cggttaccaa ggacgcctgg accgtaactc
5101 cattgaaaga caactatggt ggactcgggg tccgaaccat gatgatccct ttgagacatt
5161 gataccccat caacaaagaa agatccaact aatttccctg cttggtgaag ccgcacttca
5221 tggagaaaaa ttctatagga agattgccaa cagagttata caggaagtca aggagggggg
5281 gcttgagctc tatataccgg gttggcaggc catgttccgc tggatgcgat tccatgactt
5341 gagtatgtgg acaggagatc gcaatctctt gcccgattat gtaaatgatg atggcgtcta
5401 aggacgcccc ctcaaacatg gatggcacta gtggtgccgg tcagctggtc ccagaggtta
5461 atgcagctga acctttaccc cttgaaccgg tagtgggcgc cgcaactgcg gctgccactg
5521 ctggacaagt taatttaata gacccctgga ttatgaataa ttttgttcaa gcccctgagg
5581 gtgagtttac catctcacct aataataccc ctggagatat tctgtttgat ttgcatctag
5641 gaccacacct taatcccttt ttgcagcatt tatcccaaat gtataatggt tgggtgggca
5701 atatgagagt tagagttatg cttgcaggga atgcgttcac tgccggtaag atcataattt
5761 gttgtgtccc acctggcttt gcatcccaaa atatatcgat tggccaggcc actatgttcc
5821 cacatgtcat agctgatgtg agagtgctgg agcctataga aatccctctt gatgatgtgc
5881 gcaacgtctt gtaccacacc aatgagaacc ctcctaccat gcggttgctt tgcatgctat
5941 acacacccct ccgtgctggt ggtgcttcat cgggcacgga cccctttgtc attgcgggtc
6001 gtgtattaac ttgccctgcc cctgatttta attttctgtt ccttgtgccc cctagtgtag
6061 agcagaaaac caggcagttg actgtgccca acatacccct gaacagtatg gccaattcca
6121 gagtgcccgc aatgataaac aagatgacag tttctgctga tcaaaaccag gtggtccaat
6181 tccagaatgg tcgttgcaca cttgaaggac agctcttggg cacaactcca gtttcagcta
6241 gccaagtggc ccgcatacgt ggcaaagtct tttccaccgc atctgggaaa ggactcaatc
6301 tgactgagtt ggatggaact ccttaccacg catttgagag cccagccccc cttggtttcc
6361 ctgacatcgg agcctgtgac tggcatgtgt caacctttaa agtggatcaa aacctttcag
6421 gagaccctat gtccaggtta gatataaaac aaaatgcccc gtttgcacca caccttggtt
6481 ccattgaatt cacatctgat caggacccaa ctggggatca attaggaaca ttggcttggg
6541 tttccccttc cactagtgga attagggtag acccctggaa aattccatca tatggttcaa
6601 cagtaacaga atccactcat ctggcaccac ccatatttcc accaggcttt ggcgaggcca
6661 tagtttactt tatgtcagat tttcccattg tctcaggcac cactgcccaa gtcccctgca
6721 ccctgcccca ggaatttgtc tcacactttg tggagcaaca ggcaccgatt cgaggagaag
6781 ctgccctgct tcattatgtg gacccagaca cccaccgtaa tctaggagag ttcaaattgt
6841 accctgacgg atttgtcacc tgtgtgccaa acacaggtgg tggtcctcaa aatttaccca
6901 caaatggagt ctttgtcttt tcttcctggg tttctaggta ttaccaatta aagcctgtgg
6961 gaacagccgg tccggctagg aggcttggtg tcagaagggt ataatggccc aagccattat
7021 aggagctatt gccgccaccg ctgctggcag cgccgtgggg gcaggtatcc aggctgggac
7081 agaagcagcc cttcaatacc agaggttcca acaagatctt acactacagg agaactcatt
7141 taaacatgat gaaagaatgc taggtttgca gattgaggga tctaacgctc tactacaaaa
7201 gaacctttct actcgctata atcttttggt tggtgcaggt ctttcttcag ctgacgctgc
7261 aagatccatc gttggggccc ctgtgacaaa aattgtggac tggaacggag tgaggattgc
7321 tgctcctacg tccactgcca ctacactccg atctggcaat tttatgaaca taccagtcac
7381 actcaaaaag gagcctcaaa acttgccgcc acgctctacg ggcttttcta atcctaatta
7441 tgattcatcc acaatgattt ctaggacaac tcagtgggta gagtcacaaa attcaatcag
7501 gaatttatcg cctttccata aatcagccct gaggaccacc tgggtgaccc ctcctggttc
7561 tacttctact tctacttttt ctactgtttc ttctgcgcca cggttcttta acaccgagcg
7621 cctccctctg ttcgcaaaca ataggaaata g
//