Typing tool
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Typing tool
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Complete norovirus genomes
| MT031988 | GI.3 | |
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| GI.P3 |
ORF1: 5..5404
ORF2: 5388..7025
ORF3: 7025..7672
LOCUS MT031988 7776 bp RNA linear VRL 12-FEB-2020
DEFINITION Norovirus GI isolate Hu/US/2019/GI.3[P3]/CS0048, complete genome.
ACCESSION MT031988
VERSION MT031988.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7776)
AUTHORS Montmayeur,A.M., Phillips,A., Tatusov,R.L., Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (06-FEB-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..7776
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="CS0048"
/isolate="Hu/US/2019/GI.3[P3]/CS0048"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="USA"
/collection_date="23-Jan-2019"
/note="genotype: GI.3[P3]"
gene 5..5404
/gene="ORF1"
CDS 5..5404
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHW16217.1"
/translation="MMMASNDAIAVADVSNNNANTNNDNIGSRLMARIRGRIGPQRGE
TTTKIKDANMALDLLRRSQTPSPSRQESPPKGQRDRPPRTASEVKKAMGWDVEPEHQE
STAKAWCDLTQEEKEEIMRNNEKLFDAGGVTPSTLPSTFERADSVDNSIDQQSVTWSA
SGGVDIGINDLTTVRGPFWNMCPLPPLDARNNGPAKEPLIGDMIEFYEGHIFHYAIYI
GQGKTIGVHSPQAAFSIPRITIHPLVAWWRVCYIPTNQQRLTYDQLKELENEPWPYAS
ITNNCYEFCCRVMALDDTWLERRLVNTGKFNHPTQDWSKDTPDFHQDSKLEMVRDAVL
SAINGLVSQPFKNILSKIKPLNVLNLLSNCDWTFMGVVELIVLLAELFDVFWTPPDIS
SFIASLLPEFHLQGPEDLARDLVPLILGGIGLAIGFTRDKVTKVMKSAVDGLRSATQL
GQYGLEIFSIIKKYFFGGDQAEKTLRGIEDAVIDMEVLSSTNVTQLVKDKKLARTYMN
VLDNEEEKARKLSVRSADPHIVTSVNNLISRISMARSALAKAQAEMTSRPRPVVIMMC
GPPGIGKTKAAEHLAGRLAAEIRPGGKVGLVPRESIDHWDGYHGEDVLLWDDYGMSKI
TEDCNKLQAIADTAPLSLNCDRIENKGMQFSSDAIIITTNAPGPAPVDFVNLGPVCRR
VDFLVYCSAPEIEQMRRTHPGDANAIKDLYKRDYSHLKMELAPQGGFDSQGNTPFGKG
TMKPTTLNRLLIQATALAMERQDEFQLQGAVYNFDEDRVSAFTSLARANGLGLISMAT
LGKRLRSVKTMEGLRNALVGYKIGECDIIWNTRVYSIKSDGNNVTIKEKQAPTSPQHQ
AISTATLALSRLRAARALAYASCLQSAVLSILQVAGSALVVSRAVKRMFGTHNEQPIL
EGKHKEHNCRVHRAEAAGRGPIGHDGIIERYGLCESEQEEEGEQTVELPTASKEGKNK
GKTKKGRGRKSNFNAFSRRGLSDEEYEEYKKIREEKSGNYSIQEYLEDRQRYEEELAE
VQAGGDGGIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLVSGTEIRKRKPIDWTPP
KNDWSEDTRTVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVIPPGAKE
VFGEDLNNVAIHRVGEFTQFRFSKKMRPDLTGMVLEEGCPEGTVCTIMIKRDSGELLP
LAVRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVC
GVHAAATKSGNTVVCAIQGGEGEATLEGGGQNKGHYAGHPIIRYGSGPSLSTKTKFWK
STPQPLPPGTYEPAYLGGRDPRVEGGPSLQQVLRDQLKPFAEPRGRLPEAGLLEAAVE
TVTNALEQVMDTPVAWSYSDACMSLDKTTSSGHPHHKKKNDDWNGNSFVRELGDQAAH
ANSMYELGKSMKPVYTAALKDELVKPDKVYTKIKKRLLWGADLGTVIRAARAFGPFCE
AIKPHVIKLPIKVGMNAIEDGPLIYAEHSKYKFHYDADYTAWDSTQNREIMMESFNIM
CKLTANPSLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWILTLCA
LSEVTGLSPDVIQSQSYFSFYGDDEIVSTDIEFDPIKLTQILKEYGLKPTRPDKTDGP
IIVRQQVDGLVFLRRTISKDAIGYQGRLDRNSIERQLWWTRGPNHDDPFETLVPHSQR
KVQLVSLLGEAALHGEKFYRKIAGRVIQEVKEGGLEIYIPGWQAMFRWMRFHDLSLWT
GDRDLLPDYVNDDGV"
mat_peptide 5..1219
/gene="ORF1"
/product="p48"
mat_peptide 1220..2308
/gene="ORF1"
/product="NTPase"
mat_peptide 2309..2908
/gene="ORF1"
/product="p22"
mat_peptide 2909..3328
/gene="ORF1"
/product="VPg"
mat_peptide 3329..3871
/gene="ORF1"
/product="Pro"
mat_peptide 3872..5401
/gene="ORF1"
/product="RdRp"
gene 5388..7025
/gene="ORF2"
CDS 5388..7025
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHW16218.1"
/translation="MMMASKDAPTNMDGTSGAGQLVPEANTAEPISMEPVAGAATAAA
TAGQVNMIDPWIMNNYVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLAQMYNG
WVGNMKVKVLLAGNAFTAGKIIISCIPPGFAAQNISIAQATMFPHVIADVRVLEPIEV
PLEDVRNVLFHNNDNTPTMRLVCMLYTPLRASGSSSGTDPFVIAGRVLTCPSPDFSFL
FLVPPNVEQKTKPFSVPNLPLNTLSNSRVPSLIRSMMISRDHGQMVQFQNGRVTLDGQ
LQGTTPTSASQLCKIRGSVFHANGGNGYNLTELDGSPYHAFESPAPIGFPDLGECDWH
MEASPTTQFDTGDVIKQINVKQESAFAPHLGTVQADGLSDVSANTNMIAKLGWVSPVS
DGHRSNVDPWVIPRYGSTLTEAAQLAPPIYPPGFGEAIVFFMSDFPIAHGTNGLSVPC
TIPQEFVTHFVNEQAPTRGEAALLHYLDPDTHRNLGEFKLYPDGFMTCVPNSSGTGPQ
TLPINGVFVFVSWVSRFYQLKPVGTAGPARRLGIRRS"
gene 7025..7672
/gene="ORF3"
CDS 7025..7672
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHW16219.1"
/translation="MAQAILGAIAATAAGSAVGAGIQAGTEAALQHQRFQQDLTLQKN
SFNHDKEMMGLQVEASTALLLNSLGTRYNMLTKAGMASADAARMVVGAPTTRVIDWNG
TRIAAPMSTATTLRSGGFMTVPTVYRGGKDKQSIGGGFSNKNYDPSVSSSRTSQWVSS
QNSMRSTMEPFHPGALRTTWVTPPGSTSTSTISTVSTVPKFFNTERLPLFANRGK"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgctat tgccgttgct gatgtcagca ataacaacgc
61 taacaccaac aatgataaca ttgggtcccg ccttatggcg aggatccgtg ggcgtatagg
121 cccacaacgt ggtgagacaa ccacgaagat aaaagatgcc aatatggcac ttgacctgct
181 gcgccggtca caaacacctt ccccatcccg acaagagagc cctcccaagg gccagagaga
241 ccgcccccct cgtaccgcct ctgaagtgaa gaaggcgatg ggatgggacg ttgaacctga
301 acatcaggag agtacagcca aggcatggtg cgatctcaca caagaagaga aggaggagat
361 aatgcgcaat aatgaaaagc tcttcgacgc tggaggagtt actccatcga ctctgcccag
421 cacgtttgag agggctgact cagttgacaa ttccattgat cagcaatctg tgacatggtc
481 tgctagtggc ggggtagata ttggtattaa tgacttgacc actgtccgtg gtccgttctg
541 gaacatgtgt cccctcccac cactagatgc ccgcaacaac ggccctgcta aagaacctct
601 tataggggat atgatagagt tctatgaagg tcacatattc cattatgcca tttacattgg
661 gcagggtaag actattgggg ttcactcgcc gcaagcggct ttctccatac ctcgaataac
721 catccatccc ctggtggcct ggtggcgcgt gtgctatatc ccaactaatc agcagcgcct
781 cacctatgat caacttaaag agctagagaa tgagccatgg ccctatgctt ctattacaaa
841 caactgttat gaattttgtt gcagggtcat ggcactagat gacacttggc ttgagaggag
901 actggtcaac actggaaagt tcaaccaccc cacacaagat tggtcaaagg acaccccaga
961 ttttcaccaa gactcgaagc ttgaaatggt aagagatgct gtactgtcag ctattaatgg
1021 cctagtgtca caacccttta aaaacatctt gtcaaagatc aaaccattga acgtcctcaa
1081 tcttttgtca aattgtgatt ggacttttat gggggtcgta gagctgattg tactcctggc
1141 agagttgttt gatgtatttt ggaccccacc agacatttca agctttattg cctcattact
1201 acctgaattc cacctgcagg gtccagaaga cctagccagg gatctggtcc ctcttattct
1261 aggtggcatc ggcctagcta ttggctttac tagggacaaa gtaacaaagg tgatgaagag
1321 cgccgtcgat gggctgcggt cagcaacaca acttgggcaa tacggactag aaatattctc
1381 aatcattaag aagtatttct ttggtgggga ccaagcagaa aagaccctgc gaggtataga
1441 ggatgcagtg atagacatgg aggtgttgtc cagcaccaat gtaacacagt tagtcaaaga
1501 caaaaaattg gctaggacat acatgaatgt gctggataat gaagaggaaa aggcaaggaa
1561 actttcagtc cgtagtgctg acccacacat agtgacctca gtcaacaacc tgatatcacg
1621 gatatctatg gcaagatcag ccttagctaa agcccaggct gaaatgacat ctcgtccacg
1681 cccggtggtt attatgatgt gtggcccccc tggcatcgga aaaaccaagg ccgccgagca
1741 cttggctggt cgattggcag ctgaaattag accagggggt aaggttggtc tcgtgccccg
1801 ggagtccata gatcactggg atggatatca tggtgaggac gtcctgttgt gggatgacta
1861 tggcatgtca aagataacag aggactgcaa caagctacag gccatagctg acaccgcgcc
1921 cctatcactc aattgtgaca gaatagagaa caaaggcatg caattttcct cagatgcaat
1981 aatcataacc actaatgccc ctggcccggc cccggtggat tttgtcaact tgggccctgt
2041 ttgcaggcgt gtggacttcc tagtttactg ttctgcccct gagattgagc aaatgaggag
2101 gactcaccct ggtgatgcta acgccattaa agacttatat aaaagagact attcacactt
2161 aaaaatggaa ttagccccac aaggtgggtt tgatagccag ggtaacacgc cattcgggaa
2221 aggcaccatg aaacccacaa ccctcaatag gctgcttatt caggcaacag cattagctat
2281 ggagcggcaa gatgagttcc aactccaagg ggctgtctat aactttgatg aagacagggt
2341 gtccgctttc acaagcctcg cccgcgctaa tggcttgggg ctcataagta tggcaacatt
2401 aggtaaaaga ctcagaagcg tcaaaaccat ggaaggccta cgtaatgcat tggtggggta
2461 caaaatagga gaatgtgaca taatttggaa tactagggtg tactcaatca aaagtgatgg
2521 caacaatgtt acaattaagg aaaaacaggc cccgacatca cctcaacacc aagccatcag
2581 cacagccact ctcgcactct ctagattgcg ggccgccagg gctcttgcgt atgcctcctg
2641 tttgcagagc gcagtgctgt caatactcca ggtagctggc tccgctcttg tggtgagcag
2701 agctgtgaag cgcatgttcg gcacgcataa tgaacaacct atattagaag gtaaacacaa
2761 agaacacaac tgcagagtgc accgcgcaga ggcagctggc cgtggtccca ttgggcatga
2821 tgggatcatt gaacgctatg gcctgtgtga gagtgaacag gaagaagaag gtgagcaaac
2881 ggtcgagctg cccaccgcca gtaaagaagg caagaacaag ggtaaaacta aaaagggtcg
2941 tggacggaag tccaacttta atgccttctc aaggcgtggc ctgagtgatg aagagtatga
3001 agagtataag aagattagag aggaaaagag tggcaattac agcatccaag aataccttga
3061 ggaccgccag cgctatgagg aagaactcgc tgaagtgcag gctggtggag atggtgggat
3121 cggtgagact gaagcagaga tccgccatcg ggtcttctat aagtcaaaat ctggtatgag
3181 gaaacaacgc caagaagaac ggcgccagct aggcctcgtc agcggcaccg agattcgtaa
3241 gcgcaagcct atagactgga cccctcctaa gaatgattgg tcagaagaca cccggactgt
3301 taattatgat gagcacatca gttttgaggc ccctccttca atctggagca gggtcgtaaa
3361 atttggcagt ggctggggct tttgggtgag ctcaacagtc ttcataacca caacccatgt
3421 cataccacct ggggctaaag aggtctttgg tgaagacctt aataatgtgg ctatccacag
3481 ggttggtgaa ttcacccaat tccgtttttc caaaaagatg aggcctgact taactggtat
3541 ggttctggag gagggttgtc cagagggaac agtgtgtacc ataatgatca agagggattc
3601 tggtgagctg ctgccacttg ccgtccggat gggggcggtg gcttcaatga agatccaagg
3661 taagctcatg catgggcaat cgggaatgct gcttaccggt gccaatgcca aaggtatgga
3721 tcttggaact atacctggtg attgtggggc gccctatgtc cataaaagag gaaatgattg
3781 ggtagtctgt ggagtccatg cagccgctac aaaatcaggc aatactgtag tgtgtgccat
3841 acagggcggt gaaggtgaag ctacactgga aggtggtggc caaaacaaag gtcactatgc
3901 agggcaccca ataatcagat atgggagtgg cccctctctg tcaactaaaa caaagttctg
3961 gaagtccacc ccccaaccct tgccccccgg cacatatgaa ccagcttacc ttggtggcag
4021 agaccctagg gttgaggggg gcccatcttt gcaacaagtg ctaagggacc agttaaaacc
4081 atttgccgag ccccgtggca ggttgcccga agcgggcttg ttggaagctg cagtcgaaac
4141 agtcactaat gcacttgaac aggtcatgga tacaccagta gcttggagtt acagtgatgc
4201 ctgtatgtcc ctagataaga caaccagctc cggccaccct caccataaga agaagaatga
4261 tgattggaat ggaaattcat ttgtgagaga actgggcgac caagcagcac atgccaacag
4321 catgtacgag cttggtaagt ccatgaagcc cgtgtacaca gcagccctca aagatgagtt
4381 agtcaaacca gataaggtgt acactaagat caaaaagaga cttctttggg gcgcggatct
4441 tggcaccgtc atccgcgctg ccagagcctt cgggccgttc tgtgaagcta taaagcccca
4501 tgtaatcaag ttgcctatca aagtgggcat gaatgccata gaagatggcc ctctgattta
4561 tgcagaacat tccaaatata aattccacta tgatgctgac tacacagcct gggattcaac
4621 acaaaacaga gagatcatga tggaatcttt caatattatg tgcaagctca cagccaaccc
4681 ctcattggcc gcagtggtgg cacaggacct actctcccca tccgaaatgg acgttggcga
4741 ctatgtgatc agtgttaaag atggtctccc gtctggcttt ccatgcacct cacaggtgaa
4801 tagcattaat cattggatcc taaccctatg tgcattatca gaagttactg gtttgtcccc
4861 tgatgtaata cagtcacaat cttatttctc attttatggt gatgatgaaa tagtctcaac
4921 agatatagaa tttgacccaa tcaaactgac acaaatactg aaggaatatg gtttgaaacc
4981 cacaagacct gacaaaactg atggcccaat tatagtcaga cagcaagtgg atggcctggt
5041 cttcctccgg cgtaccatct ctaaggatgc tattggatac cagggacggc tcgatcgcaa
5101 ttccattgaa agacagctat ggtggactcg cgggccaaat cacgacgacc cgtttgagac
5161 actggtcccg cattcacaga ggaaggtcca attagtatcc ctgcttggtg aagcagcact
5221 tcatggtgaa aagttctaca gaaagatagc cggcagagtt attcaagaag tcaaagaggg
5281 ggggcttgaa atctacattc ccggctggca ggccatgttc cgctggatgc gcttccatga
5341 tctgagtttg tggacagggg accgcgatct cctgcccgat tatgtaaatg atgatggcgt
5401 ctaaggacgc cccaacaaac atggatggca ccagtggtgc cggccagctg gtaccagagg
5461 caaatacagc tgagcctata tcaatggagc ctgtggctgg ggcagcgaca gctgccgcaa
5521 ccgctggcca agttaatatg attgacccct ggataatgaa taactatgtg caagcccctc
5581 aaggagaatt caccatatca cccaataaca caccaggtga cattttgttt gatttgcaat
5641 taggccccca tcttaacccc ttcttgtctc atttggccca aatgtataat ggttgggttg
5701 gcaacatgaa agtgaaggtc ctattggctg gtaatgcctt cacggctggg aaaataatta
5761 ttagctgtat accccctggc tttgctgcac aaaatatctc tattgctcag gctacaatgt
5821 ttccccatgt tatagctgat gttagagtcc tggagcccat tgaggtgcca ttggaagatg
5881 tgaggaatgt gctgttccac aacaatgaca acactccaac catgagactg gtatgcatgc
5941 tctacacccc cttgcgagcc agtggcagct catccgggac tgatcccttt gtgattgctg
6001 ggcgcgttct gacatgtcca agccccgatt ttagcttttt gttcttggtc ccccccaatg
6061 tggaacaaaa gaccaaaccc tttagtgtcc caaatcttcc actgaacact ctctcaaatt
6121 cgagagtccc ttccttgatt aggtcaatga tgatatctag agaccacggg cagatggtcc
6181 agtttcaaaa tggtagagtc acgctagatg ggcaactgca aggcaccacg cccacgtcag
6241 ctagccaact gtgcaaaatc agaggcagtg ttttccatgc taatggtgga aatgggtaca
6301 acctaactga gctggacggg agcccatacc atgcatttga gagccccgcg cctatagggt
6361 tcccagattt gggtgaatgt gactggcaca tggaggcatc ccccaccacc caatttgata
6421 caggtgatgt cataaaacaa attaatgtca agcaggagtc agcatttgcc ccccatcttg
6481 gcacggtgca agcagatggt ttgagtgatg taagtgccaa taccaacatg atagctaaac
6541 tgggatgggt gtcacccgtc agtgatgggc ataggagcaa tgttgacccg tgggttattc
6601 cacgatacgg gtcaactctc actgaggccg cccaattggc ccctccaata taccctccag
6661 gttttggtga ggccattgtg ttctttatgt cagattttcc tattgcccat ggcactaatg
6721 gtttgagcgt gccttgcacc ataccccaag agtttgtaac ccattttgtc aatgaacaag
6781 cccctactag aggggaagca gcactgctac actatttgga ccctgatact cacaggaatc
6841 ttggtgagtt taaattatac ccagatggtt tcatgacatg tgtacctaat tctagtggca
6901 ctggcccaca aacccttcca atcaatggtg tttttgtttt tgtatcttgg gtttctagat
6961 tctatcaact aaagcctgtg ggaacagccg gcccggctcg taggcttgga attaggaggt
7021 cataatggct caagccatac ttggagccat agcagcaacg gcagctggca gcgctgttgg
7081 tgctggtata caagctggga ccgaagctgc cctgcaacac caaaggttcc agcaagattt
7141 aaccctacaa aagaattcct tcaatcatga taaagagatg atgggcctgc aggttgaggc
7201 ttcaactgca ctcctcctaa acagtttggg tactcggtac aacatgttga ccaaagctgg
7261 gatggcatcc gcagatgcgg cacgcatggt tgtgggggca cctacaacgc gtgtcattga
7321 ttggaatggg actaggattg ccgcacccat gtcaaccgcg acaacactta gatctggtgg
7381 cttcatgacc gtaccaactg tctacagggg tggtaaggat aagcaatcaa ttggtggtgg
7441 tttttctaat aaaaattatg acccctcagt ttcttcttct cgaacttctc agtgggtttc
7501 atcacaaaat tcaatgcgtt ccactatgga accatttcac ccaggtgctc tcagaaccac
7561 atgggtcact ccacctgggt caacttctac ttctacaatt tctacagttt ctactgtgcc
7621 aaaattcttt aatacagaaa ggttgccctt attcgcgaat aggggtaagt aatttttgta
7681 atatgaatta gtgggcatca tattcaattt ggaatcaatt agatatttca tattcaattt
7741 ggaatcaatt agatatttag attggcagat gatgtt
//