Typing tool
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Typing tool
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Complete norovirus genomes
| MT008456 | GI.3 | |
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| GI.P13 |
ORF1: 1..5316
ORF2: 5300..6934
ORF3: 6934..7581
LOCUS MT008456 7581 bp RNA linear VRL 15-JUL-2020
DEFINITION Norovirus GI isolate SCD1054_1 nonstructural polyprotein (ORF1),
VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MT008456
VERSION MT008456.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7581)
AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q.
TITLE Whole Genome Analysis for Co-Infected Different Genotypes of Human
Norovirus
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7581)
AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q.
TITLE Direct Submission
JOURNAL Submitted (28-JAN-2020) School of Agriculture & Biology, Shanghai
Jiao Tong University, 800 Dongchuan Rd. Minhang Dist, Shanghai
200240, China
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC genome workbench v. 12
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7581
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="SCD1054_1"
/isolation_source="asal swab"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="China: Shanghai"
/collection_date="18-Feb-2018"
/note="genotype: GI.3[P13]"
gene 1..5316
/gene="ORF1"
CDS 1..5316
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHR93632.1"
/translation="MARIRGRIGPQRGETTTKIKDANMALDLLRRSQTPSPCRQANDS
APKAQRDRPPRTASEVKRVLGWDAKPEHQESTARAWCDLSKEEKEEIMRNNEKLFDAG
GVTPSILPSTFERTDSSGAADEQQPVTWSSSGGVDLGINDLTTVRGPFWNMCPLPPLD
ARNNGPAKEPLIGDMVEFYEGHIFHYAIYIGQGKTIGVHSPQAAFSIPRITIHPLVAW
WRVCYVPTNQQRLTYEQLKELENEPWPYASITNNCYEFCCKVMALDDTWLQRKLVNSG
KFNHPTQDWSQDTPDFHQDSKLEMVRDAVLSAINGLVSQPFKNILSKIKPLNVLNLLS
NCDWTFMGVVELIVLLAELFNVFWTPPDISSFIASLLPDFHLQGPEDLARDLVPLVLG
GIGLAIGFTRDKITKVMKSAVDGLRSATQLGQYGLEIFSIIKKYFFGGDQTEKTLRGI
EDAVIDMEVLSSTNVTQLVKDKKLAKAYMNVLDNEEEKARKLSVRSADPHVVTSVNNL
ISRISMARSALAKAQAEMTSRPRPVVIMMCGPPGIGKTKAAEHLAGRLAAEIRPGGKV
GLVPRESIDHWDGYHGEDVLLWDDYGMSKITEDCNKLQAIADTAPLSLNCDRIENKGM
QFSSDAIIITTNAPGPAPVDFVNLGPVCRRVDFLVYCSAPEIEQTRRAHPGDTNAIKD
LFKKDFSHLKMELAPQGGFDSQGNTPFGKGVMKTTTLNRLLIQATALAMERQDEFQLQ
GAVYNFDEDRVAAFTNLARANGLGLISMATLGKKLRSVKSMEGLRNALLGYKIGECDI
IWNTRVYSIKSDGSNVIIKERQAPSSPQHQAISTATLALSRLRAARALAYASCLQSAV
LSILQVAGSALVVSRAVKRMFGTRTEQPILEGKHKEHNCRVHRAEAAGHGPIGHDGII
ERYGLCESEQEGEDDQTVELPTADKEGKNKGKTKKGRGRKSNFNAFSRRGLSDEEYEE
YKKVREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEAEIRHRVFYKSKSGM
RKQRQEERRQLGLVSGTEIRKRKPIDWTPPKNDWSEDTRTVNYDEHISFEAPPSIWSR
VVKFGSGWGFWVSSTVFITTTHVIPPGAKEIFGESLSNIAIHRVGEFTQFRFSKKMRP
DLSGMVLEEGCPEGTVCTIMIKRDSGELLPLAVRMGAVASMKIQGKLMHGQSGMLLTG
ANAKGMDLGTIPGDCGAPYIHKRGNDWVVCGVHAAATKSGNTVVCAIQGGEGEATLEG
GDQNKGHYAGHPILRYGNGPSLSTKTKFWKSNPQPLPPGTYEPAYLGGRDPRVEGGPS
LQQVMRDQLKPFAEPRGRLPEAGLLEAAVETVTNAIEQVMDPPVAWSYSDACMSLDKT
TSSGHPYHKRKNDDWNGNSFVRELGDQAAHANSMYELGKHMKPVYTAALKDELVKPDK
VYNKIKKRLLWGADLGTVIRAARAFGPFCEAIKPHVIKLPIKVGMNAIEDGPLIYAEH
SKYKYHFDADYTAWDSTQNREIMMESFNIMCKLTANPSLAAVVAQDLLSPSEMDVGDY
VISVKDGLPSGFPCTSQVNSINHWIYTLCALSEVTGLAPDVIQSQSYFSFYGDDEIVS
TDIEFDSNRLTQVLKEYGLKPTRPDKTDGPIIVRQQVDGLVFLRRTISKDAIGYQGRL
DRNSIERQLWWTRGPNHDDPFETLVPHPQRKVQLISLLGEAALHGEKFYRKIASRVIQ
EVKEGGLEIYIPGWQAMFRWMRFHDLSLWTGDRDLLPDYVNDDGV"
mat_peptide 1..1131
/gene="ORF1"
/product="p48"
mat_peptide 1132..2220
/gene="ORF1"
/product="NTPase"
mat_peptide 2221..2820
/gene="ORF1"
/product="p22"
mat_peptide 2821..3240
/gene="ORF1"
/product="VPg"
mat_peptide 3241..3783
/gene="ORF1"
/product="Pro"
mat_peptide 3784..5313
/gene="ORF1"
/product="RdRp"
gene 5300..6934
/gene="ORF2"
CDS 5300..6934
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHR93633.1"
/translation="MMMASKDAPTNMDGTSGAGQLVPEANTAEPISMDPVAGAATAVA
TAGQINMIDPWIMSNFVQAPQGEFTVSPNNTPGDVLFDLQLGPQLNPFLAHLAQMYNG
WVGNMRVKVLLAGNAFTAGKIIISCIPPGFTSQNISIAQMTMFPHVIADVRVLEPIEI
PLEDVRNVLFHTNDNRPTMRLVCMLYTPLRANGSSSGTDPFVIAGRVLTCPDSNFSFL
FLVPPNVEQKTRPFSVPNIPLNTLSNSRVPSLIKSMTVSRDQNQIIQFQNGRVTLDGQ
LQGTTPTSVSQLCKIRGTTYHATGGNGINLTELNGEPYHAFESPAPIGFPDLGGCDWH
LTATPTQAFNDGAKVVRLSVTQGAAFAPHLGTIHYTTTDTDYSPNTSIICTLDWLSQT
TGQSNVDPWQIPTYGSTLTEAAQLAPPIFPPGFGETLVFFLSDFPISNGKNGLSVPCT
LPQEFVTHFVNEQAPIRGEAALLHYVDPDTHRNLGEFKLYPEGFMTCVPNTSGGGPQT
LPINGVFVFVSWVSRFYQLKPVGTAGTARRLGIRRS"
gene 6934..7581
/gene="ORF3"
CDS 6934..7581
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHR93634.1"
/translation="MAQAVLGAIAATAAGSAVGAGIQAGTEAALQHQRFQQDLTLQSN
TFKHDKEMLAMQVDASTSLLQNSLNTRYNLLTQAGLTSADAARAVAGAPVTRVVDWNG
TRIAAPLSTATTLRSGGFMSIPVMYRGAKTEQQKLTGFSNPNYETGSSVSRTSQWVSS
QNSMRSSVAPFHPDALRTTWVTPPGSSSTSTISSASSIPRFFNTERLPLFANNKR"
ORIGIN
1 atggcgagga tccgtgggcg tataggccca caacgtggtg agacaaccac aaagatcaag
61 gacgccaaca tggcgcttga tcttttacgt cggtcacaaa caccatctcc gtgccggcaa
121 gctaatgaca gtgcccccaa ggcccagagg gatcgccctc cacggactgc ctcagaggta
181 aaaagggtgc tgggatggga tgctaaacca gaacatcaag aaagcacggc tagggcatgg
241 tgtgacctct caaaagaaga gaaggaagag ataatgcgta acaacgagaa gctttttgac
301 gcagggggtg tcaccccatc aattttgccc agcacatttg agaggaccga ctcgagcggt
361 gccgctgacg agcaacaacc agtgacatgg tcttctagtg gaggagtaga ccttggtatc
421 aatgatttga ccacagttcg tggcccgttt tggaacatgt gtcctctccc accactagat
481 gcccgtaata atggccctgc caaggagccc cttataggag acatggtcga gttctatgaa
541 ggtcacatat tccactatgc catttacatc ggacagggca aaactattgg agtccactca
601 ccacaggccg ctttttccat acccagaata accatccacc cacttgtggc ctggtggcgt
661 gtgtgttacg tccccactaa tcaacaacgc ctcacctacg agcaacttaa ggagttggaa
721 aatgagccat ggccttatgc ctcaatcact aacaattgtt acgagttttg ctgtaaggtg
781 atggcacttg atgacacctg gctccagaga aaactggtca atagtggaaa attcaaccac
841 cccacacagg actggtcaca ggacactcca gatttccatc aggattcaaa acttgaaatg
901 gtaagggacg ctgttctgtc agccattaac ggccttgtat cacaaccctt caagaacatc
961 ctgtcaaaaa ttaaaccatt aaatgtgctc aaccttttat caaattgtga ttggaccttc
1021 atgggtgtcg tggagctgat tgtgctcctg gcagagctgt ttaatgtgtt ctggaccccg
1081 ccagacattt caagctttat tgcatcttta ctgcctgatt tccatctaca aggcccagaa
1141 gacctagcca gagatttagt cccccttgta ttaggtggta taggcctagc aattggtttc
1201 acaagagata aaataacaaa agtgatgaag agcgccgtcg atgggctgcg gtcagctaca
1261 cagctcggac aatatggact ggagatattc tcaatcatca agaaatattt ctttggaggg
1321 gaccaaacag agaagaccct acggggtatt gaagatgcgg tgatagacat ggaagtattg
1381 tccagcacca atgtgacaca actagtcaaa gataagaagt tagccaaagc ctacatgaat
1441 gtgttggaca atgaagagga aaaagcaagg aagctctcag tccgtagtgc tgacccacat
1501 gtagtgacct ctgtcaacaa cttgatatca cgcatctcta tggcaaggtc agctctggcc
1561 aaagcccaag ctgagatgac gtcccgccca cgaccagtgg tcataatgat gtgtggcccc
1621 cctggcatcg gaaagactaa ggctgccgag cacctagccg gccgactagc tgctgaaatt
1681 agacctggag gtaaagttgg ccttgtgcct cgggaatcca tagaccattg ggatggatat
1741 catggtgagg atgtcttgct ctgggatgat tatggcatgt caaagataac agaggattgt
1801 aataagttgc aggctatagc cgacactgca ccactgtcac tcaattgtga tagaatagaa
1861 aacaaaggca tgcaattctc ttctgatgca ataatcataa ccaccaatgc tcctggccca
1921 gctccagttg actttgtcaa cttgggcccc gtgtgcaggc gagtggactt cttagtttac
1981 tgttctgcac ccgagattga acaaacgcgg agggcccatc caggtgacac taatgccatc
2041 aaggacctgt ttaaaaagga cttctcacac ttaaaaatgg agctggctcc acagggcggc
2101 tttgacagtc agggcaacac accttttggg aaaggtgtca tgaagaccac aactctcaac
2161 agattgctaa tacaggccac agcattagcc atggaacgac aagatgaatt ccaactccag
2221 ggagctgtct acaactttga tgaggacaga gtggctgcct tcaccaatct ggcccgcgct
2281 aatggcctag gactcataag tatggctaca ttaggtaaga aactaaggag tgttaagtcc
2341 atggaaggcc tgcgcaacgc attattggga tacaagattg gagagtgtga tataatttgg
2401 aacaccaggg tatattcaat caagagtgac gggagcaatg tgataattaa agaaaggcag
2461 gcaccgtcct caccccaaca ccaagccatt tccacagcta ccctagcgct ctctagattg
2521 cgggctgcca gagctcttgc ttacgcctct tgcctgcaaa gcgcggtgct gtcaatactt
2581 caggtggccg gctcagcctt agtggtgagc agggccgtaa aacgtatgtt tggcacacgc
2641 accgaacaac ccattctgga gggcaaacac aaggaacaca attgcagagt acaccgtgca
2701 gaggctgccg gccatggccc tattggtcat gatggaatca ttgaacgtta tggcctgtgt
2761 gagagtgagc aggaggggga agatgaccag actgtggagt tgcccactgc tgataaagaa
2821 ggcaaaaaca aaggtaaaac caaaaagggc cgtgggcgga agtccaattt taatgcattc
2881 tctagacgtg gactcagtga tgaggaatat gaggagtaca agaaagtgag agaagaaaag
2941 ggtggcaact acagcataca agagtacctt gaggatcgcc agcgttatga agaagaactc
3001 gctgaggtgc aggctggcgg agatggtgga atcggtgaaa ctgaagcaga gatccgccac
3061 cgagtcttct acaaatcaaa atctggcatg agaaaacaac ggcaagagga acgccgccag
3121 ttgggcctcg tgagtggcac tgaaatccgt aagcgtaagc ccattgattg gacccccccc
3181 aaaaatgatt ggtcagagga cactaggact gttaattatg atgagcacat tagcttcgaa
3241 gcccctcctt caatttggag cagagtagtt aaatttggta gtggatgggg cttttgggtg
3301 agttcaacag tgttcatcac tacaacacat gtcataccac ctggtgctaa agagatcttt
3361 ggtgagagcc ttagcaacat tgccatccat agagttggcg agttcaccca attccgtttc
3421 tctaagaaaa tgaggcctga cctctctggc atggtccttg aagaggggtg ccctgaaggc
3481 acagtgtgta ccataatgat aaaaagagac tctggagagc tgttaccgtt ggccgttcgt
3541 atgggagcag tggcctcaat gaaaattcag ggaaaactca tgcatgggca atcaggaatg
3601 ctactcactg gtgctaacgc taagggcatg gaccttggaa caatacctgg ggattgtgga
3661 gcgccttata tccataagag agggaatgat tgggtggttt gtggtgtgca tgcggcagcc
3721 acaaaatcag gcaacaccgt ggtgtgcgct attcaaggtg gtgaaggtga agccacgtta
3781 gagggtggcg atcaaaataa agggcactac gcaggacacc caatattgag atatggaaat
3841 ggtccttcac tgtcaactaa aacaaaattt tggaaatcaa acccccagcc cctaccccct
3901 ggcacgtatg aaccagccta cctcggtggc agagacccca gagttgaggg cggtccatct
3961 ttgcagcaag tgatgcgaga ccagctaaaa ccatttgctg aaccccgtgg caggttgccc
4021 gaagcaggat tgctagaagc cgcggttgaa actgtcacca atgcaattga gcaagtcatg
4081 gacccaccag tggcatggag ttacagcgat gcctgcatgt ccttagataa aacaaccagt
4141 tctggccacc cctatcacaa aagaaagaat gatgattgga atggtaactc atttgtgaga
4201 gaattgggag accaagcagc gcatgccaac agcatgtatg agcttggtaa gcatatgaaa
4261 ccagtgtata cagcagcact taaggatgaa cttgtcaaac cagacaaggt gtacaataaa
4321 attaagaaaa ggctactctg gggtgcggac cttggcactg ttatccgtgc cgctagggct
4381 tttgggccat tttgtgaagc aataaaaccc catgtgatta aattgcccat taaagtgggt
4441 atgaacgcca tagaggatgg ccccttaatt tatgcagaac actccaagta caaatatcat
4501 tttgatgctg attacacagc atgggattca acacaaaata gagagattat gatggaatcc
4561 tttaacatca tgtgcaaact cactgctaat ccctccctag ccgcagtggt ggcacaggac
4621 ctactctccc cttctgaaat ggatgtcggc gattatgtga tcagtgtcaa agatggtctg
4681 ccatctggtt tcccatgtac ctcacaagtg aacagcatca accattggat ctacactttg
4741 tgtgccctgt cagaggtcac tggcctagcc cctgatgtaa tacagtcaca gtcttacttt
4801 tcattctatg gtgatgatga aatagtctca acagatattg aatttgactc aaacagatta
4861 acacaagtgt taaaagagta tggcctaaaa cccacaagac ctgacaaaac tgatggcccg
4921 atcattgtaa ggcaacaggt tgatggcttg gttttcctcc gtcgcaccat ctcaaaggat
4981 gccatcgggt accagggccg gcttgaccgt aattccattg aaagacagct ctggtggacc
5041 cgggggccca accatgatga tccatttgaa accttggtcc cacacccgca gaggaaggtc
5101 caactgatat ccctgctggg tgaagctgca ctccatggtg agaagttcta cagaaagata
5161 gccagtaggg tgatccagga ggttaaggaa ggaggattgg aaatttacat ccctgggtgg
5221 caggccatgt tccgctggat gcgattccat gatttgagct tgtggacagg agaccgcgat
5281 ctcttgcccg attatgtaaa tgatgatggc gtctaaggac gccccaacaa acatggatgg
5341 caccagtggt gccggtcagc tggtaccaga ggcaaataca gctgaaccta tatcaatgga
5401 cccagtagct ggagccgcaa cagcggttgc aactgctgga caaattaata tgattgaccc
5461 ctggataatg agtaattttg tgcaagcccc gcaaggggaa ttcactgtct caccaaataa
5521 tacccctgga gatgttctat ttgatctaca attgggacct caactgaatc cattcctcgc
5581 ccatctagcc cagatgtata atggctgggt aggcaacatg cgtgtgaagg tactgcttgc
5641 tggcaacgct tttaccgcag ggaaaataat aattagctgc atacccccag gcttcacctc
5701 ccaaaacatt tctattgccc agatgacaat gttcccacat gtcattgctg acgtgagggt
5761 tttggaacct atagaaatac cccttgagga tgtgaggaat gtgctatttc acaccaatga
5821 caaccgtcca acaatgaggc tcgtgtgcat gttgtatacc cccctgcgtg ccaatggcag
5881 ttcctctggc acagatcctt ttgtcatagc tggccgggtt ctcacctgcc cggattcaaa
5941 ttttagcttt ctatttctag tgccccctaa tgtggaacaa aagactaggc cttttagtgt
6001 ccctaatata cctttgaata cattatcaaa ctcaagggtg ccatcattga tcaagtccat
6061 gactgtatcc agagatcaga accagataat tcaattccag aatggcaggg ttacactgga
6121 tggtcagcta cagggcacca cacccacatc agtgagccag ttgtgtaaaa ttagaggcac
6181 tacataccac gcaactggag gtaatgggat aaatttaaca gagttgaatg gtgaaccata
6241 ccatgccttt gaaagtcccg ccccaatagg gttcccagat cttggtggtt gcgattggca
6301 tctcacagca acccccacgc aggctttcaa cgatggagca aaggtcgtgc gcctatcagt
6361 cacccagggc gcagcttttg ctccgcatct gggcaccata cattatacca ccactgacac
6421 tgactatagc cccaacacta gcataatttg cacactagat tggctgtccc aaactactgg
6481 tcagagtaat gttgaccctt ggcagatacc aacttatgga tcaactttaa ctgaagccgc
6541 tcagttggcg cctcccatct tccctcctgg atttggagaa acattggttt tctttctatc
6601 agatttccct atctctaatg gtaagaatgg actcagtgta ccgtgcaccc tcccacagga
6661 atttgtcact cattttgtga atgaacaggc cccaatcaga ggagaggccg ccctcttgca
6721 ttatgttgat cctgacactc atcgtaatct tggagagttt aaattatatc cagaaggttt
6781 tatgacttgt gtccctaaca ctagtggtgg tggtccccaa actttgccta ttaatggagt
6841 ctttgtcttt gtttcttggg tctctcgctt ttatcagttg aagcctgtgg gaacggccgg
6901 tacggctcgt aggcttggaa tcaggaggtc ataatggctc aagctgtatt aggagcaatt
6961 gcagccacgg ccgctggcag cgcagttggg gcaggcattc aggctggtac tgaagctgca
7021 ttgcaacatc agcgctttca acaagatttg actttacaaa gcaatacatt taaacatgat
7081 aaggaaatgt tagctatgca ggtggatgct tctacttctc tattgcaaaa tagcttgaat
7141 actcgctata acttgttgac tcaggcgggt ctgacttctg cagacgccgc tagagcagtg
7201 gcgggggccc ccgtcacccg tgtggtagac tggaatggca ctcgaatcgc cgctccatta
7261 tcaactgcca ccactctccg ctctggagga ttcatgtcca taccagtcat gtataggggt
7321 gcaaaaacag aacaacagaa attgacaggc ttctcaaacc ccaactacga gactggttca
7381 tctgtgtcgc gcacatcgca gtgggtttcc tcacaaaatt caatgcggtc tagcgtggca
7441 ccattccacc cagatgcact caggacaact tgggtcacac cgcctggctc gtcttctaca
7501 tctactattt cttcagcttc atctatacct agattcttta atactgaaag attaccctta
7561 ttcgcaaata ataagaggtg a
//