Typing tool
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Typing tool
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Complete norovirus genomes
| MN996296 | GII.17 | |
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| GII.P17 |
ORF1: 1..5018
ORF2: 4999..6621
ORF3: 6621..7400
LOCUS MN996296 7410 bp RNA linear VRL 15-JUL-2020
DEFINITION Norovirus GII isolate SCD1044_3 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MN996296
VERSION MN996296.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7410)
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JOURNAL Unpublished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 7410)
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 genomics workbench v. 12
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7410
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="SCD1044_3"
/isolation_source="asal swab"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="China: Shanghai"
/collection_date="18-Feb-2018"
/note="genotype: GII.17[P17]"
gene <1..5018
/gene="ORF1"
CDS <1..5018
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QHQ73446.1"
/translation="NMSVTFKKALGARSKQPPPGETKQIQKPPRPPTPELVKRIPPPP
PNGEDEPGIVYKVGEGVSGLPDLTTVVQPDAQNTAYSVPPLSQREVGEAKEPLPGSIL
EMWDGEIYHYGLYVERGNVLGVHKPPAAISLAKIEITPLSLYWRVVYTPQYLIDPGTL
KNLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFKPYQDWNRKPLPTM
DEPKIKKAANAVLCALSSLFTRPIKDIIGNLRPLNILNILATCDWTFAGIVESLILLA
ELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPVVMGGVGLVLGFTKEKIGKML
SSAATTLRACKDLGSYGLEILKLVMKWFFPKKEEANELAMVRAIEDAVLDLEAIENNH
MTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAAARSLVHKA
KEELSSRQRPVVVMISGRPGIGKTHLARELAKKVASTLSGDQRIGLVPRNGVDHWDAY
KGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLA
NPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQPDMWKDHFRPDFSHIKLQLA
PQGGFDKNGNTPHGKGVVKSLTIGSLIARASGLLHERMDEFELQGSDLPTFNFDRNKV
AAFRQLAAENKYGLMDTLRVGNQLKNVKTLDELKQAIKNISIKKCQIVYNGCTYTMES
DGRGKVVVEKVQNATVQTNNELVGALHHLRSARIRYYVKCFQEAIYSLLQIAGAAFVT
SRIVRRMNVSNLWSKPPIEEGDEPEDRGGCPKPRDEDDLTIDSRDIKVEGKKGKNKSG
RGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEELAIAKATEEDF
CEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPKGKLWADDNRSVD
YNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFITSTHVIPKGITEAFGVPINQIQIH
KSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVVSILIKRTTGELMPLAVRMGTHATMK
IQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDFVVIGVHTAAARGGNT
VICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLSTKTKFWRSSNAPLPPGTYEP
AYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPNVLESAKKTIINVLEQTIDPP
QKWSYAQACASLDKTTSSGYPHHVRKNDYWSGESFTGKLADQASKANLMYEEGKHMQP
VYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCARAFGGLMDEFKANCITLPVRV
GMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLEAALEIMVRFSAEPQLAQIV
AEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTGLGPDIIQ
ANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLNGLTFL
RRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHEDPSETMIPHAQRPVQLMALLGESSL
HGPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRFSDLSTWEGDRNLAPSFVNED
GVE"
mat_peptide <1..908
/gene="ORF1"
/product="p48"
mat_peptide 909..2006
/gene="ORF1"
/product="NTPase"
mat_peptide 2007..2543
/gene="ORF1"
/product="p22"
mat_peptide 2544..2942
/gene="ORF1"
/product="VPg"
mat_peptide 2943..3485
/gene="ORF1"
/product="Pro"
mat_peptide 3486..5015
/gene="ORF1"
/product="RdRp"
gene 4999..6621
/gene="ORF2"
CDS 4999..6621
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHQ73447.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGSDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6621..7400
/gene="ORF3"
CDS 6621..7400
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHQ73448.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSTYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 ctaacatgtc tgtcaccttt aagaaagccc tcggggcgcg gtctaaacaa ccgcccccgg
61 gagaaacaaa acaaatacaa aaaccaccaa ggccaccgac accggaattg gtgaagagaa
121 tacctccacc cccacccaat ggcgaggatg aaccagggat agtgtacaag gtgggagagg
181 gtgtgtctgg gctgcccgac ctgacaactg tggtacaacc tgacgcacaa aacacagctt
241 atagtgttcc cccacttagc cagagagaag tcggcgaagc taaagaaccg ctgcctggct
301 ccattctgga aatgtgggat ggtgagatct accactatgg gctgtatgtt gagcggggga
361 atgtgctcgg agtacacaaa ccacccgctg caataagcct tgccaaaatt gaaataacac
421 cgctgtctct ctactggaga gtggtctaca ctccccagta tttgatagat ccaggaactc
481 ttaagaactt gagtggagag actttcccat acacggcctt tgacaacaac tgttatgcct
541 tctgttgttg ggtcctagac ctcaacgact cctggcttag caggagaatg atccaaagaa
601 caactggatt cttcaaacct taccaggatt ggaacagaaa acccttacca accatggatg
661 aaccgaaaat caagaaggcc gcgaatgctg tcctatgcgc tctctcctca ctcttcacta
721 ggcccattaa ggacatcatt ggaaatctta gaccactgaa cattcttaat atactggcaa
781 cctgcgattg gacttttgca ggcatagtgg aatccttgat ccttcttgct gaactctttg
841 gggtgttctg gacaccccca gatgtgtctg cgatgattgc tcccttactc ggtgactacg
901 agatgcaagg ccccgaagac ctggccgtgg aacttgtgcc cgtggtgatg ggaggagtag
961 gtttggtgtt aggattcacc aaagaaaaga tcggcaagat gctttcatca gctgcgacca
1021 cacttagggc ctgcaaggat ctaggatctt atggattgga gatactcaaa ttggtcatga
1081 agtggttctt ccccaagaag gaggaggcta acgaactagc catggtgaga gccattgagg
1141 atgcagtcct ggatttggag gcaatagaaa acaatcacat gaccaccctt ctcaaggaca
1201 aagacagcct ggccacatac atgaggactc ttgacttgga agaagagaaa gcaaggaaac
1261 tgtcaaccaa atcggcgtca cctgacatcg tgggtacaat aaacgcatta ttggctagga
1321 tagcagccgc caggtcactg gtccacaagg ctaaggagga gctctcgagc agacagagac
1381 ctgttgttgt aatgatatca ggtagaccag gtataggaaa gacccatctg gccagagagc
1441 tagccaagaa agttgcgtca acactgtcag gcgaccaaag gattggactg gtacctagaa
1501 atggcgtcga ccattgggac gcctacaagg gagaaagggt ggttctgtgg gatgattatg
1561 gtatgagcaa ccctatacag gacgcactga ggctccaaga attggctgac acctgtcctc
1621 tgaccctaaa ttgtgatagg attgaaaaca aaggaaaagt gttcgacagt gatgccataa
1681 ttataacaac caaccttgca aacccagcac cactagacta tgtcaacttt gaggcctgct
1741 ctagacgcat agacttcttg gtgtatgcag acgcacctga cattgagaag gctaagcgtg
1801 acttccctgg ccaaccagat atgtggaaag accatttcag accagacttc tcacacatta
1861 aacttcagct ggcaccacag ggaggttttg acaaaaatgg caacacccca catggtaaag
1921 gtgtggtgaa gtccctgacg attggttctc tgatcgccag ggcctccggc ttgctccacg
1981 agagaatgga tgaattcgag ctccaaggct ctgacctgcc aaccttcaat tttgaccgca
2041 acaaagtcgc cgccttcaga caattagcag ctgaaaacaa atatggtctt atggacacac
2101 tgagggtcgg caaccaactg aaaaatgtta agaccctgga tgagctgaag caggccataa
2161 agaacatcag tatcaagaag tgtcagatag tgtataatgg atgcacctat accatggaat
2221 ctgatgggag gggcaaggtt gtggttgaaa aggtacaaaa cgcaacagtt caaaccaaca
2281 atgaacttgt aggggcgctc caccacctga gatctgcaag gataagatac tatgttaaat
2341 gtttccaaga agccatttac tctctactcc aaattgctgg tgcagccttc gtcacctcac
2401 gcatcgtgag gcgcatgaac gtgtcaaacc tctggtcgaa gccacccatc gaggaaggtg
2461 atgagcctga agacagagga ggatgcccca agcccaggga tgaagatgac ctcactattg
2521 actctagaga catcaaagtg gaagggaaga agggcaagaa caagtctggc cggggcaaga
2581 aacacacagc cttctcttcc aagggcctca gtgatgaaga gtacgatgag tacaaaagaa
2641 tcagagagga gaggaatggt aaatactcaa tagaggaata cctccaagat agggacagat
2701 actatgaaga gcttgccatt gctaaggcca ctgaggagga cttctgtgag gaggaggaga
2761 tcaaaatccg ccagagaatc ttccgaccca ccaggaagca gcggaaagag gagagggcca
2821 cgcttgggct tgtcacagga tcggaaatca gaaagaggaa tccagatgac tttaaaccaa
2881 aaggaaaatt gtgggctgat gacaacagga gcgtggatta caatgagagg atagattttg
2941 aggctccccc gagtgtttgg tctaggatag tcaactttgg cacaggctgg ggattctggg
3001 tttctccaag tctctttata acttcaacac acgtcatacc aaaaggaatc actgaggcct
3061 ttggagtgcc cataaaccaa atccaaattc acaaatctgg agaattttgc cgcttgcggt
3121 ttccaaagcc aattagacca gacgtgagtg ggatgatctt ggaagagggc gcccctgaag
3181 gcactgttgt gtctattctc atcaaaagga caacagggga gctaatgcct cttgcagtca
3241 gaatggggac tcatgccaca atgaaaatcc aaggtagaac ggtgggtggt cagatgggta
3301 tgcttctcac tggctcaaat gctaaaagca tggacctagg cacaacacca ggtgactgcg
3361 gatgtccata catatacaaa aggggcaatg actttgtggt cattggggtg cacactgcag
3421 cggctcgtgg aggcaacacg gtcatatgtg ccacacaggg aagtgaaggt gaagccactc
3481 ttgaaggagg tgataacaag ggtacatatt gtggagctcc cattttggga cctggcaatg
3541 caccaaaact gagcacaaag acgaaattct ggagatcctc taacgcaccg cttcccccag
3601 gtacttatga accagcatac cttggtggaa gagacccgcg cgtgaaggga ggcccatctc
3661 tgcaacaagt tatgagagac caacttaaac cttttacaga gcccagaggg aagccaccaa
3721 acccaaatgt cttagagtca gcaaagaaga ctatcatcaa tgttctggaa caaaccattg
3781 acccccctca aaagtggtca tatgcccaag cttgtgcatc cctcgacaag acaacctcca
3841 gtggataccc gcaccacgtc cggaagaatg actattggag tggtgaatcc ttcacaggaa
3901 agcttgcaga tcaggcttca aaagcaaatc tcatgtatga ggaaggcaag cacatgcaac
3961 cagtttacac cgcagcactc aaagacgagc tcgtgaaaac tgacaaaatt tatggcaaaa
4021 tcaagaaaag actcctgtgg ggttctgacc tctccacaat gattcgatgc gccagagcat
4081 ttggtggtct catggatgaa ttcaaagcaa attgtattac actccctgtc agagttggta
4141 tgaatatgaa tgaagatggt cccataatat ttgagaaaca ctccaggtat aggtaccact
4201 atgatgctga ttactcccgt tgggactcca cacaacagcg ggcagtgctg gaagcggcac
4261 ttgaaatcat ggtgagattt tctgctgaac cacagctggc acaaatagtg gcagaggacc
4321 tgctgtcacc aagtgtggtt gatgtgggcg atttcaaaat cgctatcaat gaaggcctac
4381 catctggcgt gccttgcacc tcacaatgga attctattgc ccactggttg cttaccttgt
4441 gtgccctttc tgaagtgaca ggattaggtc ctgacatcat acaagctaac tccatgtact
4501 ctttctatgg tgatgatgag attgtgagca cagacataaa attggaccca gagaaattga
4561 ccgcaaagct caaagagtat ggccttaaac ccactcggcc cgacaaaact gaggggccgt
4621 tggtgattag tgaggaccta aacgggttga ctttcctccg ccgaacagtc acccgtgatc
4681 cagcaggttg gtttggaaag ttggaccaaa actccatcct caggcagttg tactggacaa
4741 gaggacccaa ccatgaagac cccagtgaga ccatgatacc acacgcacaa agacctgtgc
4801 agctcatggc actactagga gaatcctccc tacatggacc ctcattttac agcaaggtta
4861 gcaaattagt catatctgaa cttaaagagg gaggaatgga tttttatgtg cccagacaag
4921 agtcaatgtt cagatggatg aggttctcag atctaagcac atgggagggc gatcgcaatc
4981 tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccgctccatc taatgatggt
5041 gctgctggtc tcgtaccaga gggcaacaac gagacccttc ccctagaacc agttgcgggc
5101 gcagctatag ccgcacccgt cactggccaa aataacataa ttgacccctg gattagaaca
5161 aattttgtgc aagcaccaaa tggagagttc acagtatcac ccagaaactc tcctggagaa
5221 attttattaa acttagagtt gggtcctgat ttgaaccctt atttggctca tttgtcaagg
5281 atgtacaatg ggtatgctgg tggagtggaa gttcaggttc tcctggcagg gaacgcgttc
5341 actgccggaa agatcctctt cgccgctgtc ccgccaaatt tcccagtgga attcttaagc
5401 ccagcccaga tcacaatgct cccacattta atagtagatg ttaggactct tgaaccaatt
5461 atgatcccac tccctgatgt taggaataca ttcttccatt atagtaacca gccgaacagc
5521 cgcatgagat tagtggctat gctctatacc ccacttaggt ctaatggctc aggtgatgat
5581 gtctttactg tctcttgcag ggttttgact aggcctactc ctgattttga gttcacttat
5641 ctagtgccac cttctgttga atctaaaact aagccttttt ccttgcctat tttaaccctt
5701 tctgagctta caaattcgag gttcccagtt cccatcgatt cgcttttcac cgcccagaat
5761 aacgtgttgc aggtgcagtg tcaaaatggc aggtgtacac ttgatggtga gttacaaggc
5821 acaacccagt tgctcccatc tggcatctgt gcattcagag gacgggtgac agcacaaatt
5881 aaccaacgtg acaggtggca catgcaactg caaaacctca atggtacaac atatgaccca
5941 actgatgatg tgccagcccc gctgggtaca cctgacttca agggcgtcgt gtttgggatg
6001 gttagccaaa gaaatgtggg tagtgatgcg cctggctcaa ccagagccca acaggcgtgg
6061 gtttcaacct atagccccca atttgtcccc aaattaggtt ctgtcaatct tagaattagt
6121 gataatgatg atttccaatt ccaaccgaca aaattcacac cagtgggcgt caatgatgac
6181 gatgatggcc acccgttcag acaatgggaa ctaccaaact attcagggga gcttaccttg
6241 aatatgaatc ttgccccccc agttgctcca aattttcctg gtgaacaatt gttattcttc
6301 agatctttcg tgccatgctc aggaggttac aaccaaggta ttatagattg tcttattccc
6361 caagaatgga tccaacactt ctatcaggaa tcagcaccct cccagtcaga cgtggcccta
6421 atcaggtatg tcaaccccga tacgggacgt acactgtttg aagcaaaatt gcacagatct
6481 ggttatatta ctgtggctca ctctggagac tatcctcttg ttgttccggc taatggacac
6541 tttagatttg attcttgggt aaatcagttt tactcactcg ccccaatggg aactgggaat
6601 gggcgtagga gggctcagta atggctgggg ctttcattgc agggttggca ggcgacatgc
6661 tcacgtcatc tgtgggctcc cttgtgaacg caggggcaaa cgccatcaat caaaagatag
6721 actttgaaaa caacaaacaa ctccagtctg cttcctttca gcatgataaa gagatgctcc
6781 aagcgcaggt gagggcaacc aagcagctgc aatctgaaat gatagcccta aaacaggggg
6841 ttttggccgc aggcggcttt tcccccactg atgcagcaag gggatccatt ggtgccccca
6901 tgacaaaggt gcttgactgg tctggcactc gatactgggc gcccaattcc acaaagacaa
6961 ctggctattc gggacaattc acctcttcac ctgtgcatat gtctagccca aatgctccac
7021 aatcaaaacc tgcaaagcct aggtctctag ctccttcctc ttcttctagc agtgtctata
7081 gtacgtatac tcaatctact catttgacat ctggctcttc tagtaatgct tcttctgcct
7141 ccacaaaatt gacaaattta agctctggct cctctcaaaa cagaacagca gagtgggtaa
7201 atcaacagag aagtcttagc cctttcatga gtggcgcact taacatctca catgtcacgc
7261 caccctcaag tagggcttcc agttctggga cggtctcgac cgtgcccaag gaagttttgg
7321 actcctggac gtctgcgttt aacacacaca gacagccgct cttcgcgcac ctcagagtga
7381 ggggggagtc acgtgtttag tgaaaagaaa
//