Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| KF944110 | GII.3 | |
|
|---|---|---|---|
| GII.P16 |
ORF1: 4..5100
ORF2: 5081..6727
ORF3: 6727..7491
LOCUS KF944110 7548 bp RNA linear VRL 01-AUG-2019
DEFINITION Norovirus GII isolate
Hu/GII.P16-GII.3/Novosibirsk/Nsk-N1659/2011/RUS, complete genome.
ACCESSION KF944110
VERSION KF944110.2
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7548)
AUTHORS Zhirakovskaia,E.V., Tikunov,A.Y., Bodnev,S.A., Klemesheva,V.V.,
Netesov,S.V. and Tikunova,N.V.
TITLE Molecular epidemiology of noroviruses associated with sporadic
gastroenteritis in children in Novosibirsk, Russia, 2003-2012
JOURNAL J. Med. Virol. 87 (5), 740-753 (2015)
PUBMED 25693507
REFERENCE 2 (bases 1 to 7548)
AUTHORS Zhirakovskaia,E., Tikunov,A., Tymentsev,A., Sokolov,S.,
Sedelnikova,D. and Tikunova,N.
TITLE Changing pattern of prevalence and genetic diversity of rotavirus,
norovirus, astrovirus, and bocavirus associated with childhood
diarrhea in Asian Russia, 2009-2012
JOURNAL Infect. Genet. Evol. 67, 167-182 (2019)
PUBMED 30414977
REFERENCE 3 (bases 1 to 7548)
AUTHORS Zhirakovskaya,E. and Tikunova,N.
TITLE Direct Submission
JOURNAL Submitted (07-DEC-2013) Siberian Branch of Russian Academy of
Sciences, Institute of Chemical Biology and Fundamental Medicine,
Lavrentiev Ave. 8, Novosibirsk 630090, Russia
REFERENCE 4 (bases 1 to 7548)
AUTHORS Zhirakovskaya,E., Tikunov,A. and Shlyakhtun,V.
TITLE Direct Submission
JOURNAL Submitted (16-SEP-2015) Siberian Branch of Russian Academy of
Sciences, Institute of Chemical Biology and Fundamental Medicine,
Lavrentiev Ave. 8, Novosibirsk 630090, Russia
REMARK Sequence update by submitter
COMMENT On Sep 16, 2015 this sequence version replaced KF944110.1.
##Assembly-Data-START##
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7548
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.P16-GII.3/Novosibirsk/Nsk-N1659/2011/RUS"
/isolation_source="fecal sample"
/host="Homo sapiens; sex: F; age: 8 months"
/db_xref="taxon:122929"
/country="Russia: Novosibirsk"
/collection_date="06-Feb-2011"
/note="genotype: GII.P16-GII.3"
gene 4..5100
/gene="POL"
CDS 4..5100
/gene="POL"
/note="ORF1; encodes p48, NTPase, p22, VPg, 3CLpro, RdRp"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="ALE30631.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDNSQKPPRPPTPELVKRIPPPPSNGEEEEPVIRYEVKSGVSGLPELTTVPQP
DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAV
SMAKVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND
SWLNRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG
KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE
DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS
TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE
VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
KAKRDFPGQPDMWKDAFKSDFSHIRLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
ASGLLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKT
MEELKQAIKNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHL
KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPPLDQNESEAKEEA
PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLVT
GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
LFITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT
VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
GGAPKLSTKTKFWRSSNMPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGYPHHVRKNEFWN
GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLS
TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN
HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5081..6727
/gene="VP1"
CDS 5081..6727
/gene="VP1"
/note="major capsid protein; ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AIS24556.2"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALDPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPTDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTDNIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADAATPRLFNYYWHIQLDNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTSGRFTPKLGSLEISTESGDFDQNQP
TRFTPVGIGVDNEADFQQWTLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGYMTIA
KSGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6727..7491
/gene="VP2"
CDS 6727..7491
/gene="VP2"
/note="minor capsid protein; ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="ALE30632.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGAGAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPITKVLDWSG
TRYWAPNATSTTSMSGGFTGQAVHRATPNFKTNQAPKSTPSSGSSVRSSSTQLTNLSS
HSSGSSRSSGSTMVSSLPSSSRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSLD
TVSTVPKSVLDSWTPAFNTRRQPLFAHLRRRGESNI"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgctacc gttgccgttg cttgcaacaa caacaacgac
61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc
121 ctcggggccc ggcccaaaca gcctgccccg agggacaact cacaaaagcc cccaagacca
181 ccaactcccg agttggttaa gaggataccc cctcccccat ctaatggtga agaagaagaa
241 ccagtcatta ggtatgaggt taagagtggg gtctctggcc tgcccgagct cacaacagtc
301 ccccaaccgg atgtggccaa cacggcattc agtgtcccac cgctaagcct gagagaaaac
361 agggaggcca aggaaccgct gacaggggca atattagaga tgtgggatgg agagatatat
421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagct
481 gtaagcatgg caaaagtgga gctgacgcct ttgtcattgt actggcgtgt ggtctacacc
541 ccccaatacc tcatctcccc tgaaactctc aggaggctca acggagaggc attcccttac
601 accgcctttg acaacaactg ctatgccttt tgctgctggg tattagacct caatgattca
661 tggcttaaca ggaggatggt gcaaagaaca acaggcttct tcagacctta ccaagagtgg
721 aacagaaaac ccctgcctac tatggatgac tccaaaatca agaaggtggc aaacatattc
781 ctgtgttcat tgtccacgtt gttcaccaga cctataaaag acctcatagg aaaaattaaa
841 ccattaaata tcttgaacat cctggcaacg tgtgactgga cattcgccgg aatagtggag
901 tctctgatat tactcgctga actctttgga gttttctgga cacccccaga tgtgtctgct
961 atgatcgctc ccttacttgg agactacgag ttgcaagggc cagaagacct cgccgttgag
1021 ctcgtgcctg tggtgatggg agggattggt ctggtgttgg gattcaccaa agagaaaatt
1081 ggcaaaatgt tgtcctcagc agcatcaacg ctcagggctt gtaaggatct tggtgcctat
1141 ggcttagaga tactcaaatt ggtcatgaag tggttcttcc caaagaaaga agaggccaat
1201 gagctagcca tggtgagagc tatagaggat gctgtactgg atcttgaggc aatagaaaac
1261 aatcacatga caactttgct gaaagacaaa gacagcctag caacctacat gaaaacactg
1321 gacatggagg aggaaaaagc cagaagattg tccacaaaat ctgcatcccc cgacatagtt
1381 gggacgatca acgccctgct ggctcgaata gcagcggcta ggtcactagt ccacagggcc
1441 aaggaggagt tatctagcag gataagacca gtagttgtca tgatatctgg caaaccaggg
1501 ataggaaaaa ctcatttggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg
1561 gatcaaagag tcgggctcat accgagaaat ggtgtggacc attgggatgc atataaaggt
1621 gagagagtcg tgctgtggga cgactatggc atgagcaacc ccattcatga tgctctgcgc
1681 atacaagaat tggctgatac gtgtcccctt accttaaatt gtgacagaat tgaaaataag
1741 ggaaaagttt ttgacagtga agtcataata attacaacaa accttgccaa tccagcccca
1801 cttgattatg tcaactttga ggcctgctcc aggagaattg acttcctggt ttacgccgag
1861 gcaccagaag tagaaaaggc aaaacgagac tttcctggtc aaccagatat gtggaaggac
1921 gccttcaagt cggacttttc acatatcagg ttgcaacttg cacctcaggg cggctttgac
1981 aagaatggca acaccccaca tggaaaagga gtgatgaaga ccctcaccac cggttccctg
2041 attgcccgtg catcaggctt actgcatgag aggatggatg aatttgaact ccaaggcccc
2101 acagtcacca ccttcaattt cgaccggaac agaatcaccg cattcagaca attggctgca
2161 gaaaacaagt atgggttggt ggacaccatg agagttggca atcaattaaa aggggtgaaa
2221 accatggaag aactcaaaca agcaatcaaa aatgtgatca tcaagaggtg ccggatcatc
2281 tacggtggct ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag
2341 gtcaagaaca cctctgtaca gaccaacaac gagttggccg gagccctgca tcacctcaaa
2401 catgcccgga tcaggtacta tgtcaaatgt gtgcaagaag cagtctactc tatcatacaa
2461 attgccggcg ctgcatttgt caccacacgc attgcacgcc gcatgaacat acaagagctt
2521 tggtcgaagc caccattaga ccaaaatgaa tcagaggcta aggaagaggc ccccaagtca
2581 gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa
2641 aacaaaactg gccgtggcaa gaaacacact gcattctcta gcaagggctt gagcgatgag
2701 gagtatgacg agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag
2761 tatcttcaag acagagacag gtactatgag gaactcgcca tcgccaaggc cacggaagaa
2821 gacttctgtg aggaggagga ggtcaaaatc cgtcagagga tcttccgtcc caccaggaaa
2881 caaaggaagg aagagagggc cacactaggg ctagtaactg gttcagaaat cagaaaaaga
2941 aaccctgatg acttcaaacc taaagggaaa ctgtgggccg atgacaacag aagtgttgac
3001 tacaatgaga aactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt
3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtaatt
3121 cctgcaggca taacagaggc atttggagtc cccatcaaac aaatccaggt ccacaaatca
3181 ggtgaatttt gccggttcag attcccaaaa ccaattaggc cagatgtgac aggaatgatc
3241 ttggaagaag gtgcgcctga gggtaccgtg gcaaccgtgc tcatcaaacg ccctaccgga
3301 gagctcatgc cccttgcagc cagaatgggg acacacgcaa ccatgaaaat tcaaggccgc
3361 atggttggcg gacagatggg tatgttgctc actggttcaa atgctaaagg aatggatttg
3421 ggaacaactc ctggtgattg tggctgtccc tacatctaca aaaggggcaa tgactatata
3481 gtcattgggg tgcacacagc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag
3541 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca
3601 cccattcttg gccctggagg ggcaccaaaa ttgagcacca aaaccaaatt ttggaggtca
3661 tcgaacatgc ctcttccacc agggacatat gagcctgcct acctcggtgg ccgtgacccg
3721 cgtgttaagg gtgggccctc cttgcagcag gtaatgagag accagttgaa gccattcact
3781 gagcccaggg gcaaacctcc aagaccaagt gtgttggaag cagccaaaca aaccatcatc
3841 aatgtcctcg aacaaaccct ggaccctcca caaaaatgga catacgcaca ggcgtgtgct
3901 tcacttgaca aaaccacctc cagcgggtat ccccaccacg tccgaaagaa tgaattctgg
3961 aatggtgaga ccttcactgg taagttggca gaccaagcat caaaagcaaa cctaatgttt
4021 gaggaaggga aacacatgac accagtgtat acagcagccc tcaaggacga gctggtcaag
4081 actgacaaag tctatggaaa gatcaagaag agactgctct ggggctctga tttgtccacc
4141 atgatccggt gcgccaggtc ctttggtggg ctcatggatg agatgaaggc acactgcata
4201 tcactcccag tccgagttgg catgaacatg aatgaagatg gtccaataat atttgagaag
4261 cactccagat acaagtacca ctatgatgca gactactccc gctgggattc aacacaacag
4321 agggcagtat tagcagcagc cttggaaatc atggtcaggt tctctgcaga gccacaattg
4381 gcacagatag tcgctgagga tctgttggcc cccagtgtgg tagatgtagg agactttaaa
4441 atttcaataa atgaagggct cccctctggt gtgccatgca cttctcagtg gaattccatc
4501 gcacactggc tgctaaccct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt
4561 gtacaggcaa attccatgtt ctcattttac ggtgatgacg agattgtcag caccgatata
4621 aaattggacc ctgaaaagtt aaccaccaaa ttgaaggagt acggcctgaa accaactcgc
4681 ccagacaaaa ccgagggacc cctgatcatc agtgaggatt tgaacggact cactttcctt
4741 cggaggacgg tgactcgtga cccagctggc tggtttggaa aattggacca aagttcaata
4801 ttgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata
4861 ccccactctc aaagacccat acagctcatg gcactgcttg gtgaggcctc ccttcacgga
4921 ccctctttct acagcaaaat tagtaaattg gtcataactg aactcaaaga aggtgggatg
4981 gatttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc
5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgaatga
5101 cgctgctcca tctaatgatg gtgccgccgg cctcgtacca gagatcaata atgaggcaat
5161 ggcgctagat ccagtggcgg gcgcagcgat agcagcaccc cttactggtc agcaaaacat
5221 aatagatccc tggattatga ataattttgt gcaagcacct ggtggtgagt ttacagtgtc
5281 acctaggaac tcccctggtg aagtacttct aaatttagaa ttaggcccag aaataaatcc
5341 ctatctggcg catcttgcta ggatgtacaa tggttatgca ggtgggtttg aggtgcaggt
5401 ggtcctggct ggaaatgcgt ttacagcagg gaaagtgatc tttgcagcta taccccccaa
5461 tttcccaact gacaatttga gtgcagcgca gattacaatg tgtcctcatg taattgtaga
5521 tgtcaggcag ttggaaccaa tcaacctccc gatgcctgat gtccgcaaca atttcttcca
5581 ttataatcaa ggttctgatt cgaggttacg cttaattgca atgttgtaca ctccccttag
5641 ggcaaataat tctggggatg atgttttcac tgtgtcatgt agggtgttga ctaggcccag
5701 tcctgacttc tcattcaatt tcctcgtccc gcccactgtg gaatcaaaga caaaaccttt
5761 caccctccct attttgacca tctctgagat gtctaattct agatttccag tgccaattga
5821 ctctctgcac accagtccaa ctgataacat tgttgtccag tgccaaaatg ggcgcgtcac
5881 ccttgatggc gagctaatgg gcaccaccca actcttgccg agtcagatat gtgcttttag
5941 gggtgtgctc accagatcaa caagcagggc cagtgatcaa gctgacgcag caacccctag
6001 actcttcaac tactattggc acatacaact agacaaccta aatgggaccc cgtatgaccc
6061 tgcagaggac ataccagctc ctctggggac gccagacttt cggggcaaag tctttggcgt
6121 agccagccag agaaaccctg acagcacaac aagggcacat gaggcaaaag tggatacaac
6181 atctggccgc ttcaccccaa aattgggctc cctagaaata tccactgaat ctggtgactt
6241 tgaccagaat caaccaacaa gattcacccc agttggcatt ggagttgaca atgaggcaga
6301 ctttcaacaa tggaccttac ccgattattc cggtcagttc acccacaaca tgaatctggc
6361 cccagctgtc gctcccaatt ttcccggtga acagcttctt ttcttccgct cacagttgcc
6421 atcctctggc gggcggtcca atggcattct agactgcctg gtcccccagg aatgggtcca
6481 acacttctac caggaatccg cccctgccca aacgcaggtg gctctggtca ggtatgtcaa
6541 ccctgatact ggtagggtgt tatttgaggc taagctgcat aagctaggct acatgaccat
6601 agctaagagt ggtgattctc caataactgt acccccaaat ggatacttta ggtttgaatc
6661 ttgggtgaat cccttttaca cattagcccc catgggaact gggaatgggc gtagaaggat
6721 tcaataatgg ctggagcctt tatagcagga ttggctggtg acatgctcac aaacactgta
6781 gggtctttag ttaatgcagg ggctggtgct attaatcaaa aagttgattt tgaaaataat
6841 aaatatctac aaaatgcatc ctttaatcat gataaggaga tgttaaatgc acaaattgag
6901 gcaactaaga ggctacaggc tgacatgatt gctatcaaac aaggggtttt gaccgctggc
6961 ggtttctccc ccactgatgc agcccgtggg gctattaacg cccccataac aaaagttctg
7021 gactggagtg gaaccaggta ctgggcacca aatgccacct ccacaacttc aatgtcaggt
7081 ggcttcacag gtcaagctgt gcatagagct acaccaaatt ttaaaaccaa ccaagcccca
7141 aaatccacac ccagcagtgg gtcttcagtg aggtcaagct caacccaact caccaacttg
7201 agctcacact catctgggtc ttctcgatcc agcggatcca cgatggtcag ctcgttacca
7261 tcttccagca ggactagaga ctgggttaac caacagaatt ttaatttgga accacacatg
7321 cctggatctc ttaggacagc ttttgttact ccaccatcta gtacagcctc tagcttagac
7381 acggtctcaa ccgtgcccaa gagtgttttg gactcctgga cacctgcgtt taacacgcgc
7441 agacagccgc tcttcgcaca ccttcgtaga aggggggagt caaatattta gtgaaaagat
7501 tattcttaaa tttggtttgt aattggattt aaattagaat cttttaaa
//