Typing tool
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Typing tool
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Complete norovirus genomes
| KT326180 | GII.17 | |
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| GII.P17 |
ORF1: 1..5054
ORF2: 5035..6657
ORF3: 6657..7436
LOCUS KT326180 7507 bp RNA linear VRL 08-MAR-2016
DEFINITION Norovirus Hu/GII.17/CUHK-NS-405/HKG/2014 nonstructural polyprotein
(ORF1) gene, partial cds; and viral protein 1 (VP1) and viral
protein 2 (VP2) genes, complete cds.
ACCESSION KT326180
VERSION KT326180.1
KEYWORDS .
SOURCE Norovirus Hu/GII.17/CUHK-NS-405/HKG/2014
ORGANISM Norovirus Hu/GII.17/CUHK-NS-405/HKG/2014
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7507)
AUTHORS Chan,M.C., Lee,N., Hung,T.N., Kwok,K., Cheung,K., Tin,E.K.,
Lai,R.W., Nelson,E.A., Leung,T.F. and Chan,P.K.
TITLE Rapid emergence and predominance of a broadly recognizing and
fast-evolving norovirus GII.17 variant in late 2014
JOURNAL Nat Commun 6, 10061 (2015)
PUBMED 26625712
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7507)
AUTHORS Chan,M.C.W., Hung,T.T.N. and Chan,P.K.S.
TITLE Direct Submission
JOURNAL Submitted (22-JUL-2015) Department of Microbiology, The Chinese
University of Hong Kong, CUHK, Shatin 852, Hong Kong
COMMENT ##Assembly-Data-START##
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7507
/organism="Norovirus Hu/GII.17/CUHK-NS-405/HKG/2014"
/mol_type="genomic RNA"
/strain="Hu/GII.17/CUHK-NS-405/HKG/2014"
/isolate="CUHK-NS-405"
/host="Homo sapiens"
/db_xref="taxon:1760871"
/country="Hong Kong"
/collection_date="2014"
/note="genotype: GII.17"
gene <1..5054
/gene="ORF1"
CDS <1..5054
/gene="ORF1"
/note="contains RNA-dependent RNA polymerase; RdRp"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="ALP48592.1"
/translation="DKEKSSSDSLFANMSVTFKKALGARSKQPPPGETKQIQKPPRPP
TPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPDAQNTAYSVPPLSQREV
GEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISLAKIEITPLSLYWRVV
YTPQYLIAPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFKP
YQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKLRPLNILNILATCDWT
FAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPVVMGGIGLV
LGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKKEEANELAMVRAIED
AVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLA
RIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKVASTLSGDQRIGL
VPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDRIENKGKVF
DSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQPDMWKDHF
RPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGLLHERMDEFELQGS
DLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKNVKTLDELKQAIKNISIKKCQ
IVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLRSARIRYYVKCFQEAIY
SLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGCPKPRDEDDLTIDSRDI
KVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYE
ELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPK
GKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFITSTHVIPKGITE
AFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVVSILIKRTTGELMP
LAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDLVVI
GVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLSTKTKFWRS
SNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPNPNVLESAKKT
IINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWSGESFTGKLADQASKA
NLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMIRCARAFGGLMDE
FKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLEAALEIMV
RFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWNSIAHWLLTLCAL
SEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPL
VISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHEDPSETMIPHAQRP
VQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRFSDLSTWEG
DRNLAPSFVNEDGVE"
gene 5035..6657
/gene="VP1"
CDS 5035..6657
/gene="VP1"
/codon_start=1
/product="viral protein 1"
/protein_id="ALP48593.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6657..7436
/gene="VP2"
CDS 6657..7436
/gene="VP2"
/codon_start=1
/product="viral protein 2"
/protein_id="ALP48594.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVKATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 acgacaagga aaaatcttca agtgacagct tgtttgctaa catgtctgtt acttttaaga
61 aagccctcgg ggcgcggtct aaacaaccgc ccccgggaga aacaaaacaa atacaaaaac
121 caccaaggcc accgacaccg gaattggtga agagaatacc tccaccccca cctaatggcg
181 aggatgaacc agggatagtg tacaaggtgg gagagggtgt gtctgggctg cccgacctaa
241 caactgtggt acaacctgac gcacaaaaca cagcttatag tgttccccca cttagccaga
301 gagaagtcgg cgaagctaaa gaaccgctgc ctggctccat tctggaaatg tgggatggtg
361 agatctacca ctatgggctg tatgttgagc gggggcatgt gctcggagta cacaaaccac
421 ctgctgcaat aagccttgcc aaaattgaaa taacaccgct gtctctctac tggagagtgg
481 tctacactcc ccagtatttg atagctccag gaactcttaa gaacttgagt ggagagactt
541 tcccatacac ggcctttgac aacaactgtt atgccttctg ttgttgggtc ctagacctca
601 acgactcctg gcttagcagg agaatgatcc aaagaacaac tggattcttc aaaccttacc
661 aggattggaa cagaaaaccc ttaccaacca tggatgaacc gaaaatcaag aaggccgcga
721 atgctgttct atgcgctctc tcctcactct tcactagacc cattaaggac atcattggaa
781 agcttagacc actgaacatt cttaatatac tggcaacctg cgattggact tttgcaggca
841 tagtggaatc cttgatcctt cttgctgaac tctttggggt gttctggaca cccccagatg
901 tgtctgcgat gattgctccc ttactcggtg actacgagat gcaaggcccc gaagacctgg
961 ccgtggaact tgtgcccgtg gtgatgggag gaataggttt ggtgttagga ttcaccaaag
1021 aaaagatcgg caagatgctt tcatcagctg caaccacact tagggcctgc aaggatctag
1081 gatcttatgg attggagata ctcaaattgg tcatgaagtg gttcttcccc aagaaggagg
1141 aggctaacga actagccatg gtgagggcca ttgaggatgc agtcctggat ttggaggcaa
1201 tagaaaacaa tcacatgacc acccttctca aggataaaga cagcctggcc acatacatga
1261 ggactcttga cttggaagaa gagaaagcaa ggaaactgtc aaccaaatcg gcgtcacctg
1321 acatcgtggg tacaataaac gcattattgg ctaggatagc agccgccagg tcactggtcc
1381 acaaggctaa ggaggagctc tcgagccgac agagacctgt tgttgtaatg atatcaggta
1441 gaccaggtat aggaaagacc catctggcca gagagctagc caagaaagtt gcgtcaacac
1501 tgtcaggcga ccaaaggatt ggactggtac ctagaaatgg cgtcgaccat tgggacgcct
1561 ataagggaga aagggtggtc ctgtgggacg attatggtat gagcaaccct atacaggacg
1621 cactgaggct ccaagaattg gctgacacct gtcctctgac cctaaattgt gacaggattg
1681 aaaacaaagg aaaagtgttc gacagtgatg ccataattat aacaaccaac cttgcaaacc
1741 cagcaccact agactatgtc aactttgagg cctgctctag acgcatagac ttcttggtgt
1801 atgcagacgc acctgacatt gagaaggcta agcgtgactt ccctggccaa ccagatatgt
1861 ggaaagacca tttcagacca gacttctcac acattaaact tcagctggca ccacagggag
1921 gttttgacaa aaatggcaac accccacatg gcaaaggtgt ggtgaagtcc ctgacgattg
1981 gttctctgat cgccagggcc tctggcttgc tccacgagag aatggatgaa ttcgagctcc
2041 aaggctctga cctgccaacc ttcaattttg accgcaacaa agtcgccgcc ttcagacaat
2101 tagcagctga aaacaaatat ggtcttatgg acacgctgag ggtcggcaac caactgaaaa
2161 atgttaagac cctggatgag ctgaagcagg ccataaagaa catcagtatc aagaagtgtc
2221 agatagtgta taatggatgc acctatacca tggaatctga tgggaggggc aaggttgtgg
2281 ttgaaaaggt acaaaacgca acagttcaaa ccaacaatga acttgtaggg gcgctccacc
2341 acctgagatc tgcaaggata aggtactatg ttaaatgttt ccaagaagcc atttactctc
2401 tactccaaat tgctggtgca gccttcgtca cctcacgcat cgtgaggcgc atgaacatat
2461 caaacctctg gtcgaagcca cccatcgagg agggtgatga gcctgaagac agaggaggat
2521 gccccaagcc cagggatgaa gatgacctca ctattgactc tagagacatt aaagtggaag
2581 ggaagaaggg caagaacaag tctggccggg gcaagaaaca cacagccttc tcttccaagg
2641 gcctcagtga tgaagagtac gatgagtaca agagaatcag agaggagagg aatggcaaat
2701 actcaataga ggaatacctc caagataggg acagatacta tgaagagctt gccattgcta
2761 aggccactga ggaggacttc tgtgaggagg aggagatcaa aatccgccag agaatcttcc
2821 gacccaccag gaagcagcgg aaagaggaaa gggccacgct tgggcttgtc acaggatcgg
2881 aaatcagaaa gaggaatcca gatgacttta aaccaaaagg gaaattgtgg gctgatgaca
2941 acaggagcgt ggattacaat gagaggatag attttgaggc tcccccgagt gtttggtcta
3001 ggatagtcaa ctttggcaca ggctggggat tctgggtttc tccaagtctc tttataactt
3061 caacacacgt cataccaaaa ggaatcactg aggcctttgg agtgcccata aaccaaatcc
3121 aaattcacaa atctggagaa ttttgccgct tgcggtttcc aaagccaatt aggccagacg
3181 tgagtgggat gatcttggaa gagggtgccc ctgaaggcac tgttgtgtct attctcatca
3241 aaaggacaac aggggagctg atgcctcttg cagtcagaat ggggactcat gccacaatga
3301 aaatccaagg tagaacggtg ggtggtcaga tgggtatgct tctcactggc tcaaatgcta
3361 aaagcatgga tctaggcaca acgccaggtg actgcggatg tccatacata tacaaaaggg
3421 gcaatgacct tgtggtcatt ggggtgcaca ctgcagcagc tcgtggaggc aacacggtca
3481 tatgtgccac acagggaagt gaaggtgaag ccactcttga aggaggtgac aacaagggta
3541 cctattgtgg agcccccatt ttgggacctg gcaatgcacc aaaattgagc acaaagacaa
3601 aattctggag atcctctaac gcaccgcttc ccccaggtac ttatgaacca gcataccttg
3661 gtgggagaga cccgcgcgtg aagggaggcc catctctgca acaagttatg agagaccaac
3721 ttaaaccttt tacagagccc agagggaagc caccaaaccc aaatgtctta gagtcagcaa
3781 agaagactat catcaatgtt ctggaacaaa ccattgaccc ccctcaaaag tggtcatatg
3841 cccaagcctg tgcatccctc gacaagacaa cctccagtgg atacccgcac cacgtccgga
3901 agaatgacta ttggagtggt gaatccttca caggaaaact tgcagatcag gcttcaaaag
3961 caaatctcat gtatgaggaa ggcaagcaca tgcaaccagt ttacaccgca gcactcaaag
4021 acgagctcgt gaaaactgat aaaatttatg gcaaaatcaa gaaaagactc ctgtggggtt
4081 ctgacctctc cacaatgatt cgatgcgcca gagcatttgg tggtctcatg gatgaattca
4141 aagcaaattg tatcacactc cctatcagag ttggtatgaa tatgaatgaa gatggtccca
4201 taatatttga gaaacactcc aggtacaggt accactatga tgctgattac tcccgctggg
4261 actccacaca acagcgggca gtgctggaag cggcacttga aatcatggtg agattttctg
4321 ctgagccaca gctggcacaa atagtggcag aggacctgct gtcaccaagt gtggttgatg
4381 tgggcgattt caaaatcgct atcaatgaag gcctaccatc tggcgtgcct tgcacctcac
4441 aatggaattc tattgcccac tggttactta ccttgtgtgc cctttctgaa gtgacaggat
4501 taggtcctga catcatacaa gctaactcca tgtactcttt ctatggtgat gatgagattg
4561 tgagcacaga cataaaattg gacccagaga aattgaccgc aaagctcaaa gaatatggcc
4621 ttaaacccac tcggcccgac aaaactgagg ggccgttggt gattagtgaa gacctgaatg
4681 ggttgacttt cctccgccga acagtcaccc gtgatccagc aggttggttt ggaaagttgg
4741 accaaaactc catcctcagg cagttgtact ggacaagagg acccaaccat gaagacccca
4801 gtgagaccat gataccacac gcacaaagac ctgtgcagct catggcacta ctaggagaat
4861 cctccctaca tggaccctca ttttacagca aggttagcaa attagtcata tctgaactta
4921 aagagggagg aatggatttt tatgtgccca gacaagagtc aatgttcagg tggatgaggt
4981 tctcagatct aagcacatgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag
5041 atggcgtcga atgacgccgc tccatctaat gatggtgctg ctggtctcgt accagagggc
5101 aacaacgaga cccttcccct agaaccagtt gcgggcgcag ctatagccgc acccgtcact
5161 ggccaaaata acataattga cccctggatt agaacaaatt ttgtgcaagc accaaatgga
5221 gagttcacag tgtcacccag aaactctcct ggagaaattt tattaaactt agagttgggc
5281 cctgatttga acccttattt ggctcatttg tcaaggatgt acaatgggta tgctggtgga
5341 gtggaagttc aggttctcct ggcagggaac gcgttcactg ccggaaagat cctcttcgcc
5401 gccgtcccgc caaatttccc agtggaattc ttaagcccag cccagatcac aatgctccca
5461 catttaatag tagatgttag gactcttgaa ccaattatga tcccactccc tgatgttagg
5521 aatacattct tccattatag taaccagcct aacagccgca tgagattagt ggctatgctc
5581 tataccccac tcagatctaa tggctcaggt gatgatgtct ttactgtctc ttgcagggtt
5641 ttgactaggc ctactcctga ttttgagttc acttatttag tgccaccttc tgttgaatct
5701 aaaactaagc ctttttcctt acctatttta accctttctg agctcacaaa ttcgaggttc
5761 ccagtcccca tcgattcgct tttcaccgcc cagaataatg tgttgcaggt gcagtgtcaa
5821 aatggcaggt gtacacttga tggtgagtta caaggcacaa cccagttgct cccatctggc
5881 atctgtgcat tcagaggacg ggtgacagca caaattaacc aacgtgacag gtggcacatg
5941 caactgcaaa acctcaatgg tacaacatat gacccaactg atgatgtgcc agccccgctg
6001 ggtacacctg acttcaaggg cgtcgtgttt gggatggtaa gccaaagaaa tgtgggtaat
6061 gatgcgcctg gctcaaccag agcccaacag gcgtgggttt caacctatag cccccaattt
6121 gtccccaaat taggttctgt caatcttaga attagtgata atgatgattt ccaattccag
6181 ccgacaaaat tcacaccagt gggcgtcaat gatgacgatg atggccaccc gttcagacaa
6241 tgggaattac caaactattc aggggagctt accttgaata tgaatcttgc ccccccagtt
6301 gctccaaatt ttcctggtga acaattgtta ttcttcagat ctttcgtgcc atgctcagga
6361 ggttacaacc aaggtattat agattgtctt attccccaag aatggatcca acacttctat
6421 caggaatcag caccctccca gtcagacgtg gccctaatca ggtatgtcaa ccctgatacg
6481 ggacgtacac tgtttgaagc aaaattgcac agatctggtt acattactgt ggctcactct
6541 ggagactatc ctcttgttgt tccggctaat ggacacttta gatttgattc ttgggtaaat
6601 cagttttact cactcgcccc aatgggaact gggaatgggc gaaggagggc tcagtaatgg
6661 ctggggcttt cattgcagga ttggcaggcg acatgctcac gtcatctgtg ggctcccttg
6721 tgaacgcagg ggcaaacgcc atcaaccaaa agatagactt tgaaaacaac aaacaactcc
6781 agtctgcttc ctttcagcat gataaagaga tgctccaagc gcaggtgaag gcaaccaagc
6841 agctgcaatc tgaaatgata gccctaaaac agggggtttt ggccgcaggc ggcttttccc
6901 ccactgatgc agcaagggga gccattggtg cacccatgac aaaggtgctt gactggtctg
6961 gcactcgata ctgggcgccc aactccacaa agacaactgg ttattcggga caattcacct
7021 cttcacctgt gcacatgtct agcccaaatg ctccacaatc aaaacctgca aagcctaggt
7081 ctctagctcc ttcctcttct tctagcagtg tctatagtat gtatactcaa tctactcatt
7141 taacatctgg ctcttctagt aatgcttctt ctgcctctac aaaattgaca aatttaagct
7201 ctggctcctc tcaaaacaga acagcagagt gggtaaatca acagagaagt cttagccctt
7261 tcatgagtgg cgcacttaac atctcacatg tcacgccacc ctcaagtagg gcttccagtt
7321 ctgggacggt ctcgaccgtg cccaaggaag ttttggactc ctggacgtct gcgtttaaca
7381 cacacagaca gccgctcttc gcacacctca gagtgagggg ggagtcacgt gtttagtgaa
7441 aagaaataat tggctataat gtgatttctt tctaaatttg gctaatttgt atcttttaaa
7501 aaaaaaa
//