Typing tool
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Typing tool
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Complete norovirus genomes
| MH130046 | GI.7 | |
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| GI.PNA2 |
ORF1: 95..5404
ORF2: 5388..7028
ORF3: 7028..7678
LOCUS MH130046 7734 bp RNA linear VRL 08-APR-2018
DEFINITION Norovirus GI strain Hu/BD/2011/GI.Pg-GI.7/Dhaka1882, complete
genome.
ACCESSION MH130046
VERSION MH130046.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7734)
AUTHORS Nelson,M.I., Mahfuz,M., Chhabra,P., Haque,R., Seidman,J.C.,
Hossain,I., McGrath,M., Ahmed,A.Shamsir., Knobler,S., Vinje,J. and
Ahmed,T.
TITLE Genetic diversity of noroviruses circulating in a pediatric cohort
in Bangladesh
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7734)
AUTHORS Nelson,M.I., Mahfuz,M., Chhabra,P., Haque,R., Seidman,J.C.,
Hossain,I., McGrath,M., Ahmed,A.Shamsir., Knobler,S., Vinje,J. and
Ahmed,T.
TITLE Direct Submission
JOURNAL Submitted (27-MAR-2018) 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. 8
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7734
/organism="Norovirus GI"
/mol_type="genomic RNA"
/strain="Hu/BD/2011/GI.Pg-GI.7/Dhaka1882"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122928"
/geo_loc_name="Bangladesh"
/collection_date="06-Jul-2011"
/note="genotype: GI.Pg-GI.7"
gene 95..5404
/gene="ORF1"
CDS 95..5404
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AVT56082.1"
/translation="MARIRGRIGPQRGETTTKIKDANMALDLLRRSQTPSPSRQDSPP
KSQRDRPPRTVSEVKKVMGWDAEPEHQESTAKAWCDLSKEEKEEIMRNNERLFDAGGV
TPSTLPSTFERAELSNTSTEQQTVSWSASDGVNIGVNDLTTVRGPFWNMCPLPPLDAR
NNGPAKEPLIGDMIEFYEGHIFHYAIYMGQGKTIGVHSPQAAFSIPRITIHPLVAWWR
VCYTPTSQQRLTYDQLKELENEPWPYASITNNCYEFCCRVMALDDTWLQRRLVSAGKF
NHPTQEWSQDTPDFHQDSKLEMVRDAVLSAINGLVSQPFKNILSKIKPLNVLNLLSNC
DWTFMGVVELIVLLAELFDIFWTPPDISSFIASLLPEFHLQGPEDLARDLVPLVLGGI
GLAIGFTRDKITKVMKSAVDGLRSATQLGQYGLEIFSIIKKYFFGGDQTEKTLRGIED
AVIDMEVLSSTNVTQLVKDKKLARAYMNVLDNEEEKARKLSVRSADPHIVTSVNNLIS
RISMARSALAKAQAEMTSRPRPVVIMMCGPPGIGKTKAAEHLAGRLAAEIRPGGKVGL
VPRESIDHWDGYHGEDVLLWDDYGMSKITEDCNKLQAIADTAPLSLNCDRIENKGMQF
SSDAIIITTNAPGPAPVDFVNLGPVCRRVDFLVYCSAPEIEQMRRTHPGDASAIKDLY
KRDYTHLKMELAPQGGFDNQGNTPFGKGVMKPTTLNRLLIQATALAMERQDEFQLQGA
IYNFDEDRVAAFTNLARANGLGLISMATLGKRLRTVKTMEGLRNALVGYKIEECDIIW
NTRAYSIKSDGNTVTIKEKQAPTSPQHQAICTATLALSRLRAARALAYASCLQSAVLS
ILQVAGSAVVVSRAVKRMFGTRTDQPVLEGKHKEHSCRVHRAEAAGHGPIGHDGVIER
YGLCESEQEEEEDQTMELPTANKEGKNKGKTKKGRGRKSNFNAFSRRGLSDEEYEEYK
KIREEKSGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEAEIRHRVFYKSKSGMRK
QRQEERRQLGLVSGSEIRKRKPIDWTPPKNDWSEDTRTVNYDEHISFEAPPSIWSRVV
KFGSGWGFWVSSTVFITTTHVIPPGAKEIFGESLSNVAIHRVGEFTQFRFSKKMRPDL
TGMVLEEGCPEGTVCTIMIKRDSGELLPLAVRMGAVASMKIQGKLMHGQSGMLLTGAN
AKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAATKSGNTVVCAIQGGEGEATLEGGG
QNKGHYAGHPILRYGNGPSLSTKTKFWKSTPQPLPPGTYEPAYLGGRDPRVEGGPSLQ
QVLRDQLKPFAEPRGRLPEAGLLEAAVETVTNVLEQVMDTPVAWSFNDACMSLDKTTS
SGFPHHKKKNDDWNGSAFVRELGDQAAHANNMYELGKPMKPVYTAALKDELVKPDKVY
NKIKKRLLWGADLGTVIRAARAFGPFCEAIKPHVIKLPIKVGMNAIEDGPLIYAEHSK
YKFHYDADYTAWDSTQNREIMMESFNIMCKLTANPSLAAVVAQDLLSPSEMDVGDYVI
SVKDGLPSGFPCTSQVNSMNHWILTLCALSEVTGLSPDVIQSQSYFSFYGDDEIVSTD
IEFDPNKLTQVLKEYGLKPTRPDKTDGPIIVRQQVDGLVFLRRTISKDAIGYQGRLDR
NSIERQLWWTRGPNHDDPFETLVPHSQRKVQLVSLLGEAALHGEKFYRKIASRVIQEV
KEGGLEIYIPGWQAMFRWMRFHDLSLWTGDRDLLPDYVNDDGV"
mat_peptide 95..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..7028
/gene="ORF2"
CDS 5388..7028
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AVT56083.1"
/translation="MMMASKDAPSNMDGTSGAGQLVPEANTADPIPLEPVVGAATAAA
TAGQVNMIDPWIMNNFVQSPEGEFTISPNNTPGDILFDLQLGPHLNPFLQHLSQMYNG
WVGNMRVRILLAGNAFSAGKIIICCVPPGFTAQNISIAQATMFPHVIADVRVLEPIEI
PLDDVRNVLFHTNENRPTMRLLCMLYTPLRAGGASAGTDPFVIAGRVLTCPSPDFNFL
FLVPPSVEQKTRQLTVPNIPLNNLSNSRVPAMINKMAISPDANQVVQFQNGRCTTDGQ
LLGTTPISASQVARIRGKVFSTSSGKGLNLSELDGSPYHAFESPAPVGFPDLGHCDWH
VSSFKADQNSRDDPISRLDIKQGASFAPHLGSIEYTTSQNPDGDQLGTLTWISSPSED
TPGHGTINLWKIPSYGSTVTESVHLAPPIYPPGFGETLVYFMSNFPIGHTSSSMAQVP
CTLPQEFVAHFVNEQAPVRGDAALLHYVDPDTHRNLGEFKLYPEGYITCVPNTGGGGP
QSLPTNGVFIFSSWVSRYYQLKPVGTAGPARRLGVRRV"
gene 7028..7678
/gene="ORF3"
CDS 7028..7678
/gene="ORF3"
/note="minor capsid protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="AVT56084.1"
/translation="MAQAIFGAIAATAAGSAVGAGIQAGTEAALQYQRYQQDLTLQQN
SFKHDERMLGLQIEGSNALLQKNLSTRYNLLLNSGMSSADAARTIVGAPASKVVDWNG
VRIAAPTSTATTLRSGNFMNIPVFQKTKQQSSSVLSSGYSNPNYDSSTLVSRTTQWVE
SQNSSRSLPPFHPSALRTTWVTPPGSTSTSTYSSVSSAPRFFNTERLPLFANNGRK"
ORIGIN
1 gtgaatgatg atggcgtcta acgacgctat tgccgttgct gatgtcagca ataacaatgc
61 taacaccaac aatgaaaaca ttggatcccg ccttatggcg aggatccgtg ggcgtatagg
121 cccacaacgt ggtgaaacaa ccacaaagat caaggatgcc aacatggcgc tcgatttgtt
181 gcgccggtca caaacaccct ctccgtcccg acaggacagc ccccccaaga gtcaaagaga
241 ccgacctcca cgaactgtct cagaggtaaa gaaggtgatg gggtgggatg ctgaaccgga
301 acaccaagaa agtacggcta aagcgtggtg tgacctatcg aaagaagaaa aggaggaaat
361 aatgcgcaac aatgaaaggc ttttcgatgc tggaggggtc accccatcca ccctacctag
421 cacgtttgaa agagctgaat tgagcaacac ctcaactgaa cagcaaaccg tgtcttggtc
481 agccagtgat ggggttaaca ttggtgtaaa tgacttgacc accgtccgtg ggccattctg
541 gaacatgtgc cccctaccgc cactggatgc ccgcaacaat ggccctgcca aagagcctct
601 cattggggac atgatagagt tctatgaagg tcacatattc cattatgcca tatatatggg
661 ccagggcaaa accattggag tgcactcgcc gcaggccgcc ttctctatac ctagaataac
721 aatccatccc ttggtggctt ggtggcgtgt gtgttacact cccacaagcc agcaacgcct
781 cacatatgac cagctcaaag aattggaaaa cgagccatgg ccttatgcct ccatcaccaa
841 taattgctat gagttttgtt gcagagtgat ggcacttgat gatacctggc tccagaggag
901 actggttagt gctgggaaat ttaaccaccc cacacaagag tggtcacaag acaccccaga
961 ctttcaccaa gattccaagc ttgagatggt aagagacgct gtattgtcag ccatcaacgg
1021 cctcgtgtca cagcccttca aaaacatctt atcaaaaatt aaaccactta acgtgcttaa
1081 tctcttatca aattgtgatt ggacttttat gggggttgtg gagctgatcg tactcttggc
1141 tgagttattt gatatctttt ggactccgcc agatatttca agcttcatag cctcattgct
1201 acctgagttc catctgcaag gcccggaaga cctggctagg gacttggtcc cccttgtgct
1261 aggtggcatt ggcttagcga ttggcttcac gagagataag ataacaaaag ttatgaaaag
1321 tgctgttgac ggcctacgat cagcaacaca gcttggacaa tatggactgg aaatattctc
1381 aattataaag aaatacttct ttggggggga tcaaacagaa aagaccctaa gaggtattga
1441 ggatgcagtt atagacatgg aggtgttatc cagcactaat gtaactcaat tggtcaagga
1501 caagaaacta gctagagcat acatgaatgt gctggacaac gaggaggaga aggcccgaaa
1561 actctcagtc cgcagtgctg acccgcacat agtgacttct gttaacaact tgatatcacg
1621 catttcaatg gcaaggtcag cgctagctaa ggcccaagct gagatgactt ctcgcccccg
1681 accagtggtt ataatgatgt gtggaccccc tggcattggg aagacaaagg ccgccgagca
1741 tctagcaggc cgcctagctg ccgagattag gcctggggga aaggttggcc ttgtacctag
1801 agaatccata gaccactggg atggatacca tggcgaggat gtcctgctct gggatgacta
1861 tggtatgtca aagataacag aagattgcaa caaattgcag gctatagctg acaccgcccc
1921 gttgtcactc aactgtgata ggatagaaaa caagggtatg cagttctcat ctgatgcaat
1981 cattattacc accaatgccc ctggcccggc cccagttgac tttgttaatt tgggtcccgt
2041 gtgtaggcga gtggactttt tagtctattg ctctgcccct gagattgaac agatgcgaag
2101 aacccaccca ggtgatgcca gcgccatcaa ggacttgtac aagagggatt acacccacct
2161 aaaaatggaa ctagccccac agggcggctt tgacaatcag ggcaatacac catttgggaa
2221 aggtgttatg aagcccacga ccctcaacag actgttaatc caggctacag cactagccat
2281 ggagcggcag gatgagtttc agctccaagg ggccatttac aactttgatg aggacagagt
2341 agcagccttc actaacctag ctcgtgccaa tggcttgggg ctcataagca tggccacact
2401 aggtaaaagg ttaaggactg ttaagaccat ggaagggcta cgcaatgcac tggtgggtta
2461 caaaatagag gagtgtgaca taatttggaa taccagagca tattcaatca agagtgacgg
2521 gaacactgtc acgatcaagg agaaacaggc cccaacctca ccccaacacc aagctatctg
2581 tacggccacc ctcgcccttt ccaggctgcg ggctgctagg gcccttgcat atgcctcctg
2641 cttacaaagt gcagtgctgt caatactcca agtggcaggt tccgctgtgg tggtaagcag
2701 ggctgtgaaa cgcatgtttg gcacacgcac tgaccaacct gtactggaag gcaagcacaa
2761 ggagcatagt tgcagggtgc atcgagcaga agctgctgga cacggtccta ttggccatga
2821 tggagtcatc gagcgctatg gcctatgtga aagtgaacag gaagaagagg aagatcagac
2881 tatggaattg cccactgcta ataaggaagg caagaataag ggtaaaacta aaaagggccg
2941 cggccgtaag tctaacttca atgccttctc aaggcgcggc cttagtgatg aagagtatga
3001 ggagtataag aaaatcaggg aagaaaagag tggcaactac agcatacagg aatatcttga
3061 agaccgccaa cgctatgagg aggagctcgc tgaggtccag gcaggtggag atggtggaat
3121 cggcgaaact gaagcggaga tccgtcaccg agttttctac aagtcaaagt ctggcatgag
3181 aaagcagcgc caagaggaac gacgccagtt aggccttgtg agcgggtccg agatccggaa
3241 acgcaagcct atagactgga ctccccccaa aaatgattgg tcagaggaca ccagaacagt
3301 taattatgat gaacacatta gttttgaagc cccaccctca atctggagta gggtagtaaa
3361 atttggcagt ggctggggct tctgggtgag ctcaacagtg ttcatcacca caacacatgt
3421 cataccacct ggcgctaaag agatctttgg tgaaagcctc agcaatgtgg ccattcacag
3481 ggttggtgaa ttcactcaat ttcgattctc caaaaagatg agacccgacc tcaccggtat
3541 ggttctagaa gaaggttgcc cagaaggcac ggtgtgtact ataatgataa agagggattc
3601 tggtgagttg ctgccactag ctgtccgcat gggagcagtg gcttcaatga agatccaagg
3661 gaagctcatg catggacaat caggaatgct gctcactggc gccaatgcca agggcatgga
3721 tttaggaact atacctgggg actgtggggc accatacgtc cacaaaaggg ggaatgactg
3781 ggtagtctgt ggtgttcatg cggccgccac gaaatcaggt aatactgtgg tgtgtgctat
3841 tcagggtggt gagggtgaag ccacattgga gggtggtggc caaaataagg gtcattatgc
3901 agggcaccca atactgaggt atgggaatgg cccttcattg tcaactaaga caaagttctg
3961 gaagtcaacc ccccaaccat tgcctccagg cacctatgaa ccagcttatc ttggtggtag
4021 ggaccccagg gtcgaagggg gaccgtccct acagcaagtg ctaagagacc aactaaaacc
4081 atttgctgaa ccccgtggca gattgccgga ggcaggcttg ttagaagctg cggttgaaac
4141 agtcaccaat gtgcttgaac aagttatgga cacaccagtg gcatggagct tcaatgatgc
4201 ctgtatgtca ttagataaaa caaccagttc aggctttccc catcacaaga aaaagaatga
4261 tgattggaat gggagtgcat ttgtgagaga acttggagac caggcggccc atgccaacaa
4321 catgtatgag cttggtaagc ccatgaaacc tgtatacacg gcagccctca aggatgaact
4381 cgtcaagcca gataaagtgt acaacaagat taagaaaagg ctactttggg gggcagatct
4441 tggcactgtc atccgcgctg caagagcctt tgggccattc tgcgaagcca taaaacctca
4501 tgtgatcaag ctgcccatca aagtgggcat gaatgccata gaggatggcc ctctgatcta
4561 cgcagaacat tccaagtaca aatttcatta tgatgctgat tacacggcat gggattcaac
4621 acaaaacagg gaaatcatga tggagtcctt caacattatg tgcaaattga cagccaatcc
4681 ctctctggct gcagtggtgg cgcaagatct tctttctccc tctgagatgg atgttggtga
4741 ctatgtaatc agtgtcaagg atggcctacc gtctggtttc ccatgtacct cacaagtaaa
4801 tagcatgaat cattggatct tgaccctgtg tgctctatca gaggtgactg gactctcccc
4861 cgatgtgata cagtcacaat cctacttctc tttctatggt gatgatgaga tagtgtccac
4921 agacattgag tttgacccta ataaattaac ccaagtgcta aaagaatatg gcttgaaacc
4981 cacaagaccc gacaaaactg atggccctat cattgttaga caacaggtgg atggcttggt
5041 ctttctccgg cgcaccatat caaaagatgc cattgggtat caggggcggc tcgaccgcaa
5101 ctctattgag agacagttgt ggtggactcg cggacccaat catgatgatc cattcgaaac
5161 tctggttcca cattcgcaga gaaaagtcca gttggtgtct ttgttaggtg aagctgctct
5221 ccatggtgaa aagttttata ggaaaatagc cagcagagtt attcaagaag tcaaggaagg
5281 ggggcttgag atctacatac ccgggtggca ggccatgttc cgctggatgc ggttccatga
5341 tttgagtttg tggacaggag atcgcgatct cttgcccgat tatgtaaatg atgatggcgt
5401 ctaaggacgc cccttcaaac atggacggca ctagtggtgc tggtcagctg gtaccagagg
5461 caaatacagc tgatcctatt cctttagaac ctgtagtggg ggctgcaact gcagccgcta
5521 cggcaggtca agttaatatg attgacccct ggattatgaa taattttgta cagtcaccag
5581 agggcgagtt cacaatttcc ccaaacaaca cgcctggtga cattttattt gatttacaat
5641 tgggccccca tttgaatcca ttcctgcagc atctatcaca aatgtacaat ggctgggttg
5701 gcaacatgag ggttagaatt ttgctagcag ggaatgcgtt ttctgctggc aagataataa
5761 tctgttgtgt gccacctggc tttaccgccc agaatatctc tattgctcaa gccacaatgt
5821 tcccacatgt cattgctgat gttcgagttt tagagcccat tgagattccc cttgatgatg
5881 ttcggaatgt gctcttccac acaaatgaga atagacccac aatgcgctta ttgtgcatgc
5941 tctatacccc attgcgggcc gggggcgcgt ctgcgggcac ggatccgttc gtgattgcag
6001 ggcgcgtctt aacgtgccct tctccagact ttaatttctt gtttctagtc ccccccagtg
6061 ttgaacagaa aactaggcaa ttaactgtcc ccaacatccc attaaacaat ctatcaaatt
6121 ctagagtgcc cgccatgatc aataagatgg ctatttcccc agatgctaat caggttgtcc
6181 aatttcaaaa tggcaggtgc actacagatg gtcagctgtt gggcacaacc ccaatctctg
6241 cgagtcaagt ggcccgcatc cgcggcaaag tcttttctac ttcatcaggc aaaggattga
6301 atctgtctga gctggatggc agtccatacc atgcctttga aagccctgcc ccggttggtt
6361 tccctgatct tgggcattgt gattggcatg tctcttcctt caaggcagat caaaactcca
6421 gagatgatcc catttcacgc ctagatataa aacaaggggc ttcctttgcc ccacacctgg
6481 gttctattga atacaccact tcgcaaaacc cagatggtga tcagttaggc accctaacct
6541 ggatctcatc cccatcagaa gatactcctg gtcatggtac aatcaaccta tggaagattc
6601 cttcctatgg ttccacagtc actgagtcag tccatcttgc acccccaata taccctccag
6661 ggtttgggga gacacttgtt tattttatgt ctaactttcc aattgggcac actagttcca
6721 gtatggcaca agtcccatgc accctccctc aggaatttgt ggcacacttt gttaatgaac
6781 aggcccctgt tcgaggggat gcagcattgc ttcactatgt ggaccctgac acacacagaa
6841 atcttggtga gttcaaatta taccctgaag gttacataac ctgtgtgcca aacacgggtg
6901 gtggtggccc ccaaagtctc ccaaccaatg gagtatttat cttctcatct tgggtatcca
6961 gatattatca acttaagcct gtgggaacgg ctggaccagc caggaggctt ggagttagaa
7021 gggtataatg gcccaagcaa tctttggagc aatagctgcc actgccgcag gcagtgcggt
7081 gggagcagga attcaagcag ggactgaggc tgcattgcaa taccaaaggt atcaacaaga
7141 tttgaccctc caacaaaatt catttaaaca tgatgaaaga atgctaggcc tgcaaattga
7201 ggggtctaat gccctattgc aaaagaatct gtcaactagg tataatcttt tacttaattc
7261 aggtatgtcg tcagctgatg ctgcccgcac cattgtcggt gctcccgcct caaaggttgt
7321 ggactggaat ggtgttagga ttgcagcccc aacatcgacc gctaccacac tgcggtcagg
7381 caactttatg aacatacctg tctttcaaaa gactaaacag cagtcatctt ctgtgctgtc
7441 ttctggatat tctaacccta attatgattc ctctactctt gtgtctagaa ctactcaatg
7501 ggttgaatca cagaattcat ctagaagctt gcctcccttt catccttcag ctttaaggac
7561 cacgtgggtt acaccacctg gttcaacctc aacttctact tattcatctg tgtcttcagc
7621 gccccggttt ttcaacaccg agcgccttcc tttattcgca aataatggta ggaagtgaat
7681 ttttgtaata taatgtgggc atcatattca ttattggcaa ttttaattgg tttt
//