Typing tool
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Typing tool
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Complete norovirus genomes
| MT008454 | GI.5 | |
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| GI.P12 |
ORF1: 1..5217
ORF2: 5201..6832
ORF3: 6832..7470
LOCUS MT008454 7492 bp RNA linear VRL 15-JUL-2020
DEFINITION Norovirus GI isolate SCD1044_2 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MT008454
VERSION MT008454.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7492)
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JOURNAL Unpublished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 7492)
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..7492
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="SCD1044_2"
/isolation_source="asal swab"
/host="Homo sapiens"
/db_xref="taxon:122928"
/country="China: Shanghai"
/collection_date="18-Feb-2018"
/note="genotype: GI.5[P12]"
gene <1..5217
/gene="ORF1"
CDS <1..5217
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHR93626.1"
/translation="HMALDLIGRGPSPAPPIELPKQQRDRAPRSVVETQQAMGWVEQP
LDQNLPTWEELSESEKRDILANNENWFDAGGLAPASIPSTHDRGREEGSLGHQVKWTA
ASGVDLGIADLTTVNGPAWNMCPMPPMDQRNSGPAKEPIIGDMLEFYEGHIYHYAIYI
GQGKSIGVHSPRAAFTIARITIHPIVAWWRVCYTPNTEQRLTYDQLKELENEPWPYAA
VTNNCYEFCCQVMGVQDSWLERRLVTSGRFNHPTQDWSKDTPDFQQDSKLEIVRDAVL
AAINGLVSKPFKDLLGKLKPLNVLNLLSNCDWTFMGVVETVILLMELFGVFWNPPDVS
SFIASLLPDMHLQGPEDLAKDLIPLVLGGIGLAIGFTKDKVTKVMKSAVEGLRAATQL
GQYGLEIFAVLKKYFFGGDQTEKTLKDIEAAVIDMEVISATAITQLVRDKQSARTYMA
ILDAEEEKARKLSVKHADPHVVSTTNALIARISLARSALAKAQAEMTNRVKPVVIMMC
GPPGIGKTKAAEYLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMSKI
ADDCNKLQAIADTAPLTLNCDRIEKKGLQFVSDAIVITTNAPGPAPVDFVNLGPVCRR
VDFLVYCSAPDVEQTRRTNPGDTGALKDCFKSDFSHLKMELAPQGGFDNQGNTPFGKG
TMRPTTLNRLLIQAVALTMERQDEFQMQGPTYDFDADRVSAFTSLARANGLGLIDMAK
LGKRLRSVDSIHGLKNALNGYSITPCSIKWQARIYDIESDGTTVKIKENTAAQSQQQH
SIDTAVLALTRLRAARAAAYASCLQSAITTILQMAGSALVIHRAVKRMFGTHSSTISL
EGPTREHQCRAHVAKANGGGPIGHDDVIDKYGLCETEEEEEAQEVKVCLPTAIQEGKN
KGKTKKGRGRRANYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEEMA
EVQAGGDGGIGETEMEIRHRVFYKSKSRKNRQEERHQLGLVTGSDIRKRKPIDWTPPK
NEWADDNREVDYNEKINFEAPPTLWSRVVKFGSGWGFWVSPTVFITTTHVIPSGAREF
FGEPIDSIAIHRAGEFTQLRFSKKIRPDLTGMVLEEGCPEGVVCSILIKRDSGELLPL
AVRMGAIASMKIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRNNDWVVCG
VHAAATKSGNTVVCAVQAGEGETTLEGGDKGHYAGHEIIKHSKGPALSSKTKFWRSTT
EPLPPGVYEPAYLGGRDPRVKGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVT
SVLEQVMDTPVPWSYADACQSLDKTTSSGHPYHKRKNDDWNGTTFIGELGEQAAHANN
MYEQGKSMKPLYTAALKDELVKPEKVYQKIKKRLLWGADLSTVIRAARAFGPFCDAIK
PHVIKLPIKVGMNSIEDGPMIYAEHARFKNHFDADYSAWDSTQNRQIMTESFSIMCRL
TATPELASVVAKDLLAPSEMDVGDYIIRVKEGLPSGFPCTSQVNSINHWLITLCALSE
VTGLSPDVIQSQSYFSFYGDDEIVSTDIDFDPSRLTQVLKEYGLRPTRPDKSEGPIVL
RRQIDGLVFLRRTISKDAAGFQGRLDRGSIERQLWWTRGPNHDDPNETLIPHPQRKVQ
LISLLGEASLHGEKFYRKIASKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDR
NLLPEFVNDDGV"
mat_peptide <1..1041
/gene="ORF1"
/product="p48"
mat_peptide 1042..2130
/gene="ORF1"
/product="NTPase"
mat_peptide 2131..2733
/gene="ORF1"
/product="p22"
mat_peptide 2734..3147
/gene="ORF1"
/product="VPg"
mat_peptide 3148..3690
/gene="ORF1"
/product="Pro"
mat_peptide 3691..5214
/gene="ORF1"
/product="RdRp"
gene 5201..6832
/gene="ORF2"
CDS 5201..6832
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHR93627.1"
/translation="MMMASKDATPSADGANGAGQLVPEVNNAEPLPLDPVAGASTALA
TAGQVNMIDPWIFNNFVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLAHLSQMYNG
WVGNMRVRVILAGNAFTAGKVIICCVPPGFQSRTLSIAQATLFPHVIADVRTLEPLEI
PLEDVRNTLYHNNDSQPTMRLLCMLYTPLRTGGSSGGTDAFVVAGRVLTCPSPDFNFL
FLVPPTVEQKTRPFSVPNIPLQNLSNSRVPSLIQGMVLSNDHAQTVQFQNGRCTTDGH
LLGTTPVSAGQLMKFRGKVTSGSKVLNLTELDGSPFLAFEAPAPAGFPDLGKCDWHVE
MSLYQDNNHADPIVLHAIEPNSSSFVPHLGSVSFKENVNVAGDYVCTIQYTSPPSDPQ
NPNADVDFWSIPDYGSNLAEASQLAPVVYPPGFGEAIVYFMSRIPGWNRTNRLNLVPC
LLPQEFIGHFVSEQAPAIGEAALLHYVDPDTNRNLGEFKLYPEGFITCVPNGTGPQQL
PLNGVFVFSSWVSRFYQLKPVGTASLARGRLGIRR"
gene 6832..7470
/gene="ORF3"
CDS 6832..7470
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHR93628.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLTLQQN
SFKHDKEMIAYQMEMSNDLLAKNLNTRYSLLQAGGLSSADAARAVAGAPVTRIVDWNG
TRIAAPNSSATTLRSGGFMTVPMPFSSKTRAPSTSGSIGMTNPNYGDTMSRVSSWVQS
QNSSVRSVSPFHRGALQTVWVTPPGSTSSSSVSSVPRFFNTDRLPLFANRGR"
ORIGIN
1 cacatggcgc tagatctcat tggcaggggg ccatctccag ccccccccat tgagctaccc
61 aaacaacaac gggaccgcgc ccccagaagt gtagtagaaa cccaacaggc catgggttgg
121 gtagaacaac cactggacca gaacctacca acctgggagg agttaagtga gtccgagaaa
181 cgtgacatct tggctaataa tgaaaactgg tttgatgcag gtggacttgc tccggcatcc
241 atccctagca cacatgaccg tggcagggaa gaaggttctc tggggcatca agtgaagtgg
301 actgctgctt ctggcgtgga ccttggaatt gctgatctta caacagtcaa tggcccagct
361 tggaatatgt gcccaatgcc ccccatggac caacgtaaca gtggccccgc gaaggaaccc
421 ataattggtg atatgctgga gttttatgag ggccacatat accactatgc catatatatt
481 gggcagggaa aatctattgg ggtccattca ccacgggccg catttaccat agccaggata
541 accatacacc ccattgtggc ttggtggcga gtgtgttaca ccccaaatac tgaacaaaga
601 ttgacctatg atcagctcaa ggagttggag aatgaaccat ggccatacgc ggcagtgacc
661 aacaactgct atgaattctg ctgccaagtt atgggtgtgc aagattcttg gctggagcgt
721 cggttggtga catctggacg ttttaaccat ccaacccagg attggtctaa agacacacca
781 gattttcagc aagatagcaa attagaaatt gttagggatg ctgtcttagc tgcaattaat
841 ggtcttgtct caaaaccatt taaagatctc cttggaaaac tcaagcccct caatgttcta
901 aacctactat ctaactgtga ttggacattt atgggggttg ttgagactgt gatacttctt
961 atggagctgt ttggtgtgtt ttggaaccca cctgatgtgt caagcttcat cgcatcactc
1021 ttgcctgaca tgcatttaca aggccctgaa gatcttgcaa aggatcttat acccctagta
1081 cttggcggta taggtcttgc cattggcttc acaaaagata aagtcacaaa ggtcatgaaa
1141 agtgcagttg aaggtcttcg tgctgcaact cagcttggcc aatatggtct tgagatcttc
1201 gcagtcctca agaagtattt ctttggtggt gatcaaacgg agaagacact caaggacata
1261 gaggcagcag tgattgatat ggaagttatc tcagccacag ctataacaca actagtgaga
1321 gataaacaat ctgcccgaac atacatggcc atcctagacg ctgaggagga gaaggctaga
1381 aagctctctg ttaaacatgc agaccctcat gtggtgtcca caaccaatgc cctcatcgca
1441 cgcatatcat tggccagatc agcattggct aaagcccagg ccgagatgac taacagggtt
1501 aaacctgtgg tcattatgat gtgtggtcca ccaggcattg gtaagacgaa ggccgctgaa
1561 tatctagcca agcgcctggc caatgagatt agaccaggtg ggaaggttgg tttggtgccg
1621 cgtgaggcag ttgatcattg ggatggttac catggtgaag aagttatgtt gtgggatgat
1681 tatgggatgt caaaaatagc tgatgactgc aacaagttac aagccattgc tgacacagcc
1741 cctttaacct taaattgtga caggattgaa aagaagggac tccagtttgt gtctgatgcc
1801 atagttataa ccactaatgc ccctggccca gcacctgtcg attttgttaa cttgggaccg
1861 gtgtgtcggc gcgtggactt cctcgtttat tgttcagctc cagatgtgga acagacccgc
1921 cgcaccaatc caggtgatac tggtgccctc aaggattgct tcaaaagcga tttttcacac
1981 ctaaagatgg aattggcacc acaaggtggt tttgacaacc aaggcaacac accattcggg
2041 aagggcacca tgcgcccaac tacattgaac agactgctga tacaggctgt ggcacttact
2101 atggagaggc aggatgagtt tcaaatgcaa ggccccacat atgattttga cgctgatcgg
2161 gtttcagcct tcactagtct agctcgagcc aatgggctgg gccttataga tatggctaag
2221 ctagggaaga gactaaggag tgtggactct attcatggcc ttaagaatgc actcaatggt
2281 tactctataa caccatgtag cataaaatgg caagctagga tctatgacat tgaatctgat
2341 ggtacaacag ttaaaataaa agaaaacact gcagctcaat cccagcaaca acattcaata
2401 gatacagcag tcctggcatt gacccgcttg agggcggcaa gggcagcagc ttatgcctct
2461 tgtttgcaaa gcgcaatcac cactatcctt caaatggcag gttcggccct ggtcatacat
2521 cgggctgtaa agcgaatgtt tggcacgcat tcgagcacta tctcattaga gggccccact
2581 agagaacacc aatgtagggc ccacgtcgcc aaggccaatg gaggtggccc tatagggcac
2641 gatgatgtca tcgataaata tggcctatgt gagactgagg aggaagagga agcccaggag
2701 gttaaagttt gtctgcccac agccatacaa gaaggtaaga ataaagggaa aaccaaaaag
2761 ggaagaggta ggcgtgccaa ctataacgct ttttcaagaa gaggcctcag tgatgaagag
2821 tatgaggagt acaagaagat tagagaagag aaaaatggca actacagcat acaggagtac
2881 cttgaagaca ggcaacgcta tgaagaagaa atggctgaag tccaggctgg tggggatggt
2941 ggaattggag agactgagat ggagatacga catcgtgtgt tctataagtc taagtccagg
3001 aagaaccgtc aagaggaacg ccaccagtta ggccttgtga ctggcagtga tattaggaag
3061 aggaaaccaa ttgattggac cccccccaaa aatgaatggg ctgatgacaa cagagaggtt
3121 gattacaatg agaagatcaa ttttgaggcc cccccaacat tgtggagtcg tgttgtcaaa
3181 tttggctcag gttggggttt ttgggttagc cctacagtgt ttatcacaac cacccatgtt
3241 atcccatcag gagctagaga attctttggc gagcccatag actcaattgc catccaccgg
3301 gcaggagaat tcacccaatt aaggttttca aagaagatcc gccctgacct gacggggatg
3361 gtcttagaag aagggtgccc agaaggagtg gtctgctcca tactcataaa aagggactct
3421 ggtgagttgc tccccctggc cgttcgtatg ggggccattg cttcaatgaa gatacagggg
3481 cgtctagtcc atggacaatc tggtatgttg ctcactgggg ccaatgctaa aggtatggac
3541 ctgggtacca tcccaggtga ttgtggtgcc ccttatgttt acaaaagaaa taatgactgg
3601 gtggtctgtg gtgtacatgc cgcagccaca aagtctggca acacagtggt gtgtgcggtg
3661 caagctggtg agggtgaaac aactttggaa ggtggtgata aaggccacta tgctgggcat
3721 gaaataataa aacacagtaa agggccagcc ctctcaagca agactaagtt ctggagatct
3781 acaactgaac cattaccacc aggcgtgtac gagccagcct acctcggagg tcgcgaccct
3841 agggtaaaag gcgggccgtc actgcaacag gttctgagag accaactcaa gccattcgct
3901 gaaccacgag ggcgcatgcc agaacctggg ttgctggaag cagctgttga aactgtgaca
3961 tctgtgttag aacaagtcat ggacacacca gtaccttggt catatgctga tgcttgccag
4021 tctcttgata aaactaccag ttctggccat ccctatcaca agaggaagaa tgatgattgg
4081 aatggaacca ccttcattgg ggagctcggt gagcaggctg cccatgctaa caacatgtat
4141 gagcagggga aatcaatgaa gcccctctat actgctgcac tcaaagatga attggttaag
4201 cctgaaaaag tctaccagaa gatcaagaag cgcctcctat ggggggctga cttgtccact
4261 gtcatccgag cagccagagc tttcggtcca ttttgtgatg ccataaaacc acatgtaata
4321 aagttgccca tcaaagttgg catgaactca attgaagatg gcccaatgat atacgctgag
4381 catgcccgat tcaaaaatca ctttgatgct gattattctg cctgggattc aacacaaaac
4441 agacaaatta tgacagagtc tttctcaata atgtgtcgcc tgacagcaac accagaattg
4501 gcttcggtgg ttgccaagga tctccttgca ccttctgaga tggatgttgg ggactatata
4561 ataagagtca aagaaggttt accatcagga ttcccttgta cttctcaagt caacagcata
4621 aaccactggc tcatcactct ctgtgcactc tctgaggtca cgggcctttc tccagatgtc
4681 atacagtcac aatcttactt ttccttttat ggggatgacg agatagtatc aactgatatt
4741 gatttcgacc catcccgctt aacccaggtg cttaaagagt atggtcttcg gcccacacgc
4801 cctgacaaaa gtgaaggacc aatagtgttg agaaggcaga tcgatggctt ggtgttcctg
4861 agaagaacta tatcaaagga tgcagctggt tttcaaggca gattggacag aggctccatc
4921 gagagacaat tgtggtggac ccgcggccca aatcatgatg acccaaatga aaccctgata
4981 ccccacccac aaagaaaggt tcagcttata tctctgcttg gcgaggcctc attacatggg
5041 gagaagtttt acaggaagat agctagtaag gttatccagg aaattaaaac tggtggtctt
5101 gaaatgtacg tgccgggttg gcaggcaatg ttccgctgga tgcgcttcca tgatcttggg
5161 ttgtggacag gagatcgcaa tcttctgcct gaattcgtaa atgatgatgg cgtctaagga
5221 cgctacacca agcgcagatg gcgcgaatgg cgccggtcag ctcgtgccgg aggttaataa
5281 tgctgaacca ctgcctcttg atcctgtggc tggggcttct actgccttag ctactgctgg
5341 tcaagttaat atgattgatc cttggatttt taataatttt gtccaagccc ctcagggcga
5401 atttacaatc tcccccaata atacccccgg tgatatattg tttgatttgc aattgggacc
5461 tcatctcaat cccttccttg cccatttgtc acaaatgtat aatggttggg ttggtaacat
5521 gcgagtcagg gtcatcctgg caggtaacgc atttaccgcc ggtaaagtga taatctgctg
5581 tgtcccccct ggcttccaat ctaggaccct atcaattgct caggctaccc tctttcctca
5641 tgtgattgct gatgttcgca cattagaacc acttgaaatc ccactggagg atgttagaaa
5701 tacattgtac cataataatg acagccagcc gacaatgcgc ttattgtgca tgctgtacac
5761 gccacttcgc actggtggta gttctggtgg cacagacgcg tttgtcgtcg cagggagagt
5821 tttaacttgc ccaagtcctg acttcaattt tctcttcctg gttcccccaa ctgtggaaca
5881 aaagacacgg ccttttagtg tccccaatat cccactccag aatctttcca actcccgagt
5941 tcctagccta atccaaggca tggttctctc taatgaccat gcacaaacgg tccaattcca
6001 gaatggcagg tgtactactg acggtcacct gctggggacc acccctgttt ctgctggtca
6061 gcttatgaaa ttcagaggta aggtaacttc aggttcaaaa gtactaaatt tgacagaatt
6121 agatggttca ccatttctgg cctttgaggc cccagcccct gctggattcc ctgaccttgg
6181 aaagtgtgat tggcacgtcg agatgagtct ctatcaagat aataatcatg cagaccctat
6241 tgtgttgcat gccattgaac ccaactcatc ttcttttgtc ccgcaccttg gtagtgtttc
6301 ctttaaagag aatgttaatg tagctggtga ttatgtttgt accatacaat acacttcacc
6361 tccctctgat ccccaaaatc ctaatgctga tgttgatttc tggtctatcc ctgattatgg
6421 ttccaacttg gctgaggcat cacagctcgc cccagttgtt tacccccctg gcttcggtga
6481 ggctattgtc tacttcatgt cgcgcatccc cggctggaat aggactaata ggctcaatct
6541 agtcccttgc cttttgcccc aagagttcat tggacatttt gtcagtgaac aagcccccgc
6601 aattggtgag gctgctctct tacattatgt tgacccagat accaatcgga acctgggtga
6661 atttaaattg taccctgagg gttttattac ttgtgtccct aatggcacag gccctcagca
6721 gcttccccta aatggtgtct ttgtcttttc ttcctgggtg tcaagatttt atcaactcaa
6781 gcctgtggga acggcctctt tggccagagg taggcttggc atcagaagat aatggcccaa
6841 gccataattg gtgctattgc agcctccgct gctggcagtg cccttggggc tggtatccaa
6901 gctggcgcag aagcagcact tcaaagtcaa aggtatcagc aagatttgac cctacagcaa
6961 aattcattta aacatgataa agagatgatt gcctaccaaa tggaaatgtc taatgatttg
7021 cttgctaaaa atctcaacac tcgctattca ttgcttcagg ccggcggcct gtctagtgct
7081 gatgctgcta gggcggtcgc tggtgctccg gtgactcgca ttgttgattg gaatggcact
7141 aggattgcag ctccgaattc atcagcaaca accttaagat cagggggctt catgactgtg
7201 ccaatgcctt tcagcagcaa gactagggca ccaagcactt cagggtctat tggcatgacc
7261 aatccaaatt acggtgacac tatgtctcgt gtttcctctt gggtgcaatc tcaaaattct
7321 tcagtaagaa gtgtttcccc ttttcaccgt ggcgcccttc aaactgtatg ggtaacacca
7381 ccgggttcaa cttcttcctc atctgtatct tctgtaccta ggtttttcaa tactgacaga
7441 ttgcctcttt tcgcaaatag aggccgataa tgttgtaata agaatgtggg cg
//