Typing tool
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Typing tool
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Complete norovirus genomes
| MT008460 | GI.5 | |
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| GI.P12 |
ORF1: 1..5214
ORF2: 5198..6829
ORF3: 6829..7467
LOCUS MT008460 7467 bp RNA linear VRL 15-JUL-2020
DEFINITION Norovirus GI isolate SCD1062_1 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MT008460
VERSION MT008460.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7467)
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JOURNAL Unpublished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 7467)
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..7467
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="SCD1062_1"
/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..5214
/gene="ORF1"
CDS <1..5214
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHR93644.1"
/translation="MALDLIGRGPSPAPPIELPKQQRDRAPRSVVETQQAMGWVEQPL
DQNLPTWEELSESEKRDILANNENWFDAGGLAPASIPSTHDRGREEGSLGHQVKWTAA
SGVDLGIADLTTVNGPAWNMCPMPPMDQRNSGPAKEPIIGDMLEFYEGHIYHYAIYIG
QGKSIGVHSPRAAFTIARITIHPIVAWWRVCYTPNTEQRLTYDQLKELENEPWPYAAV
TNNCYEFCCQVMGVQDSWLERRLVTSGRFNHPTQDWSKDTPDFQQDSKLEIVRDAVLA
AINGLVSKPFKDLLGKLKPLNVLNLLSNCDWTFMGVVETVILLMELFGVFWNPPDVSS
FIASLLPDMHLQGPEDLAKDLIPLVLGGIGLAIGFTKDKVTKVMKSAVEGLRAATQLG
QYGLEIFAVLKKYFFGGDQTEKTLKDIEAAVIDMEVISATAITQLVRDKQSARTYMAI
LDAEEEKARKLSVKHADPHVVSTTNALIARISLARSALAKAQAEMTNRVKPVVIMMCG
PPGIGKTKAAEYLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMSKIA
DDCNKLQAIADTAPLTLNCDRIEKKGLQFVSDAIVITTNAPGPAPVDFVNLGPVCRRV
DFLVYCSAPDVEQTRRTNPGDTGALKDCFKSDFSHLKMELAPQGGFDNQGNTPFGKGT
MRPTTLNRLLIQAVALTMERQDEFQMQGPTYDFDADRVSAFTSLARANGLGLIDMAKL
GKRLRSVDSIHGLKNALNGYSITPCSIKWQARIYDIESDGTTVKIKENTAAQSQQQHS
IDTAVLALTRLRAARAAAYASCLQSAITTILQMAGSALVIHRAVKRMFGTHSSTISLE
GPTREHQCRAHVAKANGGGPIGHDDVIDKYGLCETEEEEEAQEVKVCLPTAIQEGKNK
GKTKKGRGRRANYNAFSRRGLSDEEYEEYKKIREEKNGNYSIQEYLEDRQRYEEEMAE
VQAGGDGGIGETEMEIRHRVFYKSKSRKNRQEERHQLGLVTGSDIRKRKPIDWTPPKN
EWADDNREVDYNEKINFEAPPTLWSRVVKFGSGWGFWVSPTVFITTTHVIPSGAREFF
GEPIDSIAIHRAGEFTQLRFSKKIRPDLTGMVLEEGCPEGVVCSILIKRDSGELLPLA
VRMGAIASMKIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRNNDWVVCGV
HAAATKSGNTVVCAVQAGEGETTLEGGDKGHYAGHEIIKHSKGPALSSKTKFWRSTTE
PLPPGVYEPAYLGGRDPRVKGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTS
VLEQVMDTPVPWSYADACQSLDKTTSSGHPYHKRKNDDWNGTTFIGELGEQAAHANNM
YEQGKSMKPLYTAALKDELVKPEKVYQKIKKRLLWGADLSTVIRAARAFGPFCDAIKP
HVIKLPIKVGMNSIEDGPMIYAEHARFKNHFDADYSAWDSTQNRQIMTESFSIMCRLT
ATPELASVVAKDLLAPSEMDVGDYIIRVKEGLPSGFPCTSQVNSINHWLITLCALSEV
TGLSPDVIQSQSYFSFYGDDEIVSTDIDFDPSRLTQVLKEYGLRPTRPDKSEGPIVLR
RQIDGLVFLRRTISKDAAGFQGRLDRGSIERQLWWTRGPNHDDPNETLIPHPQRKVQL
ISLLGEASLHGEKFYRKIASKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRN
LLPEFVNDDGV"
mat_peptide <1..1038
/gene="ORF1"
/product="p48"
mat_peptide 1039..2127
/gene="ORF1"
/product="NTPase"
mat_peptide 2128..2730
/gene="ORF1"
/product="p22"
mat_peptide 2731..3144
/gene="ORF1"
/product="VPg"
mat_peptide 3145..3687
/gene="ORF1"
/product="Pro"
mat_peptide 3688..5211
/gene="ORF1"
/product="RdRp"
gene 5198..6829
/gene="ORF2"
CDS 5198..6829
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHR93645.1"
/translation="MMMASKDATPSADGANGAGQLVPEVNNAEPLPLDPVAGASTALA
TAGQVNMIDPWIFNNFVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLAHLSQMYNG
WVGNMRVRVILAGNAFTAGKVIICCVPPGFQSRTLSIAQATLFPHVIADVRTLEPLEI
PLEDVRNTLYHNNDSQPTMRLLCMLYTPLRTGGSSGGTDVFVVAGRVLTCPSPDFNFL
FLVPPTVEQKTRPFSVPNIPLQNLSNSRVPSLIQGMVLSNDHAQTVQFQNGRCTTDGH
LLGTTPVSAGQLMKFRGKVTSGSKVLNLTELDGSPFLAFEAPAPAGFPDLGKCDWHVE
MSLYQDNNHADPIVLHAIEPNSSSFVPHLGSVSFKENVNVAGDYVCTIQYTSPPSDPQ
NPNADVDFWSIPDYGSNLAEASQLAPVVYPPGFGEAIVYFMSRIPGWNRTNRLNLVPC
LLPQEFIGHFVSEQAPAIGEAALLHYVDPDTNRNLGEFKLYPEGFITCVPNGTGPQQL
PLNGVFVFSSWVSRFYQLKPVGTASLARGRLGIRR"
gene 6829..7467
/gene="ORF3"
CDS 6829..7467
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHR93646.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLTLQQN
SFKHDKEMIAYQMEMSNDLLAKNLNTRYSLLQAGGLSSADAARAVAGAPVTRIVDWNG
TRIAAPNSSATTLRSGGFMTVPMPFSSKTRAPSTSGSIGMTNPNYGDTMSRVSSWVQS
QNSSVRSVSPFHRGALQTVWVTPPGSTSSSSVSSVPRFFNTDRLPLFANRGR"
ORIGIN
1 atggcgctag atctcattgg cagggggcca tctccagccc cccccattga gctacccaaa
61 caacaacggg accgcgcccc cagaagtgta gtagaaaccc aacaggccat gggttgggta
121 gaacaaccac tggaccagaa cctaccaacc tgggaggagt taagtgagtc cgagaaacgt
181 gacatcttgg ctaataatga aaactggttt gatgcaggtg gacttgctcc ggcatccatc
241 cctagcacac atgaccgtgg cagggaagaa ggttctctgg ggcatcaagt gaagtggact
301 gctgcttctg gcgtggacct tggaattgct gatcttacaa cagtcaatgg cccagcttgg
361 aatatgtgcc caatgccccc catggaccaa cgtaacagtg gccccgcgaa ggaacccata
421 attggtgata tgctggagtt ttatgagggc cacatatacc actatgccat atatattggg
481 cagggaaaat ctattggggt ccattcacca cgggccgcat ttaccatagc caggataacc
541 atacacccca ttgtggcttg gtggcgagtg tgttacaccc caaatactga acaaagattg
601 acctatgatc agctcaagga gttggagaat gaaccatggc catacgcggc agtgaccaac
661 aactgctatg aattctgctg ccaagttatg ggtgtgcaag attcttggct ggagcgtcgg
721 ttggtgacat ctggacgttt taaccatcca acccaggatt ggtctaaaga cacaccagat
781 tttcagcaag atagcaaatt agaaattgtt agggatgctg tcttagctgc aattaatggt
841 cttgtctcaa aaccatttaa agatctcctt ggaaaactca agcccctcaa tgttctaaac
901 ctactatcta actgtgattg gacatttatg ggggttgttg agactgtgat acttcttatg
961 gagctgtttg gtgtgttttg gaacccacct gatgtgtcaa gcttcatcgc atcactcttg
1021 cctgacatgc atttacaagg ccctgaagat cttgcaaagg atcttatacc cctagtactt
1081 ggcggtatag gtcttgccat tggcttcaca aaagataaag tcacaaaggt catgaaaagt
1141 gcagttgaag gtcttcgtgc tgcaactcag cttggccaat atggtcttga gatcttcgca
1201 gtcctcaaga agtatttctt tggtggtgat caaacggaga agacactcaa ggacatagag
1261 gcagcagtga ttgatatgga agttatctca gccacagcta taacacaact agtgagagat
1321 aaacaatctg cccgaacata catggccatc ctagacgctg aggaggagaa ggctagaaag
1381 ctctctgtta aacatgcaga ccctcatgtg gtgtccacaa ccaatgccct catcgcacgc
1441 atatcattgg ccagatcagc attggctaaa gcccaggccg agatgactaa cagggttaaa
1501 cctgtggtca ttatgatgtg tggtccacca ggcattggta agacgaaggc cgctgaatat
1561 ctagccaagc gcctggccaa tgagattaga ccaggtggga aggttggttt ggtgccgcgt
1621 gaggcagttg atcattggga tggttaccat ggtgaagaag ttatgttgtg ggatgattat
1681 gggatgtcaa aaatagctga tgactgcaac aagttacaag ccattgctga cacagcccct
1741 ttaaccttaa attgtgacag gattgaaaag aagggactcc agtttgtgtc tgatgccata
1801 gttataacca ctaatgcccc tggcccagca cctgtcgatt ttgttaactt gggaccggtg
1861 tgtcggcgcg tggacttcct cgtttattgt tcagctccag atgtggaaca gacccgccgc
1921 accaatccag gtgacactgg tgccctcaag gattgcttca aaagcgattt ttcacaccta
1981 aagatggaat tggcaccaca aggtggtttt gacaaccaag gcaacacacc attcgggaag
2041 ggcaccatgc gcccaactac attgaacaga ctgctgatac aggctgtggc acttactatg
2101 gagaggcagg atgagtttca aatgcaaggc cccacatatg attttgacgc tgatcgggtt
2161 tcagccttca ctagtctagc tcgagccaat gggctgggcc ttatagatat ggctaagcta
2221 gggaagagac taaggagtgt ggactctatt catggcctta agaatgcact caatggttac
2281 tctataacac catgtagcat aaaatggcaa gctaggatct atgacattga atctgatggt
2341 acaacagtta aaataaaaga aaacactgca gctcaatccc agcaacaaca ttcaatagat
2401 acagcagtcc tggcattgac ccgcttgagg gcggcaaggg cagcagctta tgcctcttgt
2461 ttgcaaagcg caatcaccac tatccttcaa atggcaggtt cggccctggt catacatcgg
2521 gctgtaaagc gaatgtttgg cacgcattcg agcactatct cattagaggg ccccactaga
2581 gaacaccaat gtagggccca cgtcgccaag gccaatggag gtggccctat agggcacgat
2641 gatgtcatcg ataaatatgg cctatgtgag actgaggagg aagaggaagc ccaggaggtt
2701 aaagtttgtc tgcccacagc catacaagaa ggtaagaata aagggaaaac caaaaaggga
2761 agaggtaggc gtgccaacta taacgctttt tcaagaagag gcctcagtga tgaagagtat
2821 gaggagtaca agaagattag agaagagaaa aatggcaact acagcataca ggagtacctt
2881 gaagacaggc aacgctatga agaagaaatg gctgaagtcc aggctggtgg ggatggtgga
2941 attggagaga ctgagatgga gatacgacat cgtgtgttct ataagtctaa gtccaggaag
3001 aaccgtcaag aggaacgcca ccagttaggc cttgtgactg gcagtgatat taggaagagg
3061 aaaccaattg attggacccc ccccaaaaat gaatgggctg atgacaacag agaggttgat
3121 tacaatgaga agatcaattt tgaggccccc ccaacattgt ggagtcgtgt tgtcaaattt
3181 ggctcaggtt ggggtttttg ggttagccct acagtgttta tcacaaccac ccatgttatc
3241 ccatcaggag ctagagaatt ctttggcgag cccatagact caattgccat ccaccgggca
3301 ggagaattca cccaattaag gttttcaaag aagatccgcc ctgacctgac ggggatggtc
3361 ttagaagaag ggtgcccaga aggagtggtc tgctccatac tcataaaaag ggactctggt
3421 gagttgctcc ccctggccgt tcgtatgggg gccattgctt caatgaagat acaggggcgt
3481 ctagtccatg gacaatctgg tatgttgctc actggggcca atgctaaagg tatggacctg
3541 ggtaccatcc caggtgattg tggtgcccct tatgtttaca aaagaaataa tgactgggtg
3601 gtctgtggtg tacatgccgc agccacaaag tctggcaaca cagtggtgtg tgcggtgcaa
3661 gctggtgagg gtgaaacaac tttggaaggt ggtgataaag gccactatgc tgggcatgaa
3721 ataataaaac acagtaaagg gccagccctc tcaagcaaga ctaagttctg gagatctaca
3781 actgaaccat taccaccagg cgtgtacgag ccagcctacc tcggaggtcg cgaccctagg
3841 gtaaaaggcg ggccgtcact gcaacaggtt ctgagagacc aactcaagcc attcgctgaa
3901 ccacgagggc gcatgccaga acctgggttg ctggaagcag ctgttgaaac tgtgacatct
3961 gtgttagaac aagtcatgga cacaccagta ccttggtcat atgctgatgc ttgccagtct
4021 cttgataaaa ctaccagttc tggccatccc tatcacaaga ggaagaatga tgattggaat
4081 ggaaccacct tcattgggga gctcggtgag caggctgccc atgctaacaa catgtatgag
4141 caggggaaat caatgaagcc cctctatact gctgcactca aagatgaatt ggttaagcct
4201 gaaaaagtct accagaagat caagaagcgc ctcctatggg gggctgactt gtccactgtc
4261 atccgagcag ccagagcttt cggtccattt tgtgatgcca taaaaccaca tgtaataaag
4321 ttgcccatca aagttggcat gaactcaatt gaagatggcc caatgatata cgctgagcat
4381 gcccgattca aaaatcactt tgatgctgat tattctgcct gggattcaac acaaaacaga
4441 caaattatga cagagtcttt ctcaataatg tgtcgcctga cagcaacacc agaattggct
4501 tcggtggttg ccaaggatct ccttgcacct tctgagatgg atgttgggga ctatataata
4561 agagtcaaag aaggtttacc atcaggattc ccttgtactt ctcaagtcaa cagcataaac
4621 cactggctca tcactctctg tgcactctct gaggtcacgg gcctttctcc agatgtcata
4681 cagtcacaat cttacttttc cttttatggg gatgacgaga tagtatcaac tgatattgat
4741 ttcgacccat cccgcttaac ccaggtgctt aaagagtatg gtcttcggcc cacacgccct
4801 gacaaaagtg aaggaccaat agtgttgaga aggcagatcg atggcttggt gttcctgaga
4861 agaactatat caaaggatgc agctggtttt caaggcagat tggacagagg ctccatcgag
4921 agacaattgt ggtggacccg cggcccaaat catgatgacc caaatgaaac cctgataccc
4981 cacccacaaa gaaaggttca gcttatatct ctgcttggcg aggcctcatt acatggggag
5041 aagttttaca ggaagatagc tagtaaggtt atccaggaaa ttaaaactgg tggtcttgaa
5101 atgtacgtgc cgggttggca ggcaatgttc cgctggatgc gcttccatga tcttgggttg
5161 tggacaggag atcgcaatct tctgcctgaa ttcgtaaatg atgatggcgt ctaaggacgc
5221 tacaccaagc gcagatggcg cgaatggcgc cggtcagctc gtgccggagg ttaataatgc
5281 tgaaccactg cctcttgatc ctgtggctgg ggcttctact gccttagcta ctgctggtca
5341 agttaatatg attgatcctt ggatttttaa taattttgtc caagcccctc agggcgaatt
5401 tacaatctcc cccaataata cccccggtga tatattgttt gatttgcaat tgggacctca
5461 tctcaatccc ttccttgccc atttgtcaca aatgtataat ggttgggttg gtaacatgcg
5521 agtcagggtc atcctggcag gtaacgcatt taccgccggt aaagtgataa tctgctgtgt
5581 cccccctggc ttccaatcta ggaccctatc aattgctcag gctaccctct ttcctcatgt
5641 gattgctgat gttcgcacat tagaaccact tgaaatccca ctggaggatg ttagaaatac
5701 attgtaccat aataatgaca gccagccgac aatgcgctta ttgtgcatgc tgtacacgcc
5761 acttcgcact ggtggtagtt ctggtggcac agacgtgttt gtcgtcgcag ggagagtttt
5821 aacttgccca agtcctgact tcaattttct cttcctggtt cccccaactg tggaacaaaa
5881 gacacggcct tttagtgtcc ccaatatccc actccagaat ctttccaact cccgagttcc
5941 tagcctaatc caaggcatgg ttctctctaa tgaccatgca caaacggtcc aattccagaa
6001 tggcaggtgt actactgacg gtcacctgct ggggaccacc cctgtttctg ctggtcagct
6061 tatgaaattc agaggtaagg taacttcagg ttcaaaagta ctaaatttga cagaattaga
6121 tggttcacca tttctggcct ttgaggcccc agcccctgct ggattccctg accttggaaa
6181 gtgtgattgg cacgtcgaga tgagtctcta tcaagataat aatcatgcag accctattgt
6241 gttgcatgcc attgaaccca actcatcttc ttttgtcccg caccttggta gtgtttcctt
6301 taaagagaat gttaatgtag ctggtgatta tgtttgtacc atacaataca cttcacctcc
6361 ctctgatccc caaaatccta atgctgatgt tgatttctgg tctatccctg attatggttc
6421 caacttggct gaggcatcac agctcgcccc agttgtttac ccccctggct tcggtgaggc
6481 tattgtctac ttcatgtcgc gcatccccgg ctggaatagg actaataggc tcaatctagt
6541 cccttgcctt ttgccccaag agttcattgg acattttgtc agtgaacaag cccccgcaat
6601 tggtgaggct gctctcttac attatgttga cccagatacc aatcggaacc tgggtgaatt
6661 taaattgtac cctgagggtt ttattacttg tgtccctaat ggcacaggcc ctcagcagct
6721 tcccctaaat ggtgtctttg tcttttcttc ctgggtgtca agattttatc aactcaagcc
6781 tgtgggaacg gcctctttgg ccagaggtag gcttggcatc agaagataat ggcccaagcc
6841 ataattggtg ctattgcagc ctccgctgct ggcagtgccc ttggggctgg tatccaagct
6901 ggcgcagaag cagcacttca aagtcaaagg tatcagcaag atttgaccct acagcaaaat
6961 tcatttaaac atgataaaga gatgattgcc taccaaatgg aaatgtctaa tgatttgctt
7021 gctaaaaatc tcaacactcg ctattcattg cttcaggccg gcggcctgtc tagtgctgat
7081 gctgctaggg cggtcgctgg tgctccggtg actcgcattg ttgattggaa tggcactagg
7141 attgcagctc cgaattcatc agcaacaacc ttaagatcag ggggcttcat gactgtgcca
7201 atgcctttca gcagcaagac tagggcacca agcacttcag ggtctattgg catgaccaat
7261 ccaaattacg gtgacactat gtctcgtgtt tcctcttggg tgcaatctca aaattcttca
7321 gtaagaagtg tttccccttt tcaccgtggc gcccttcaaa ctgtatgggt aacaccaccg
7381 ggttcaactt cttcctcatc tgtatcttct gtacctaggt ttttcaatac tgacagattg
7441 cctcttttcg caaatagagg ccgataa
//