Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC597132 | GII.3 | |
|
|---|---|---|---|
| GII.P12 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS LC597132 7586 bp RNA linear VRL 14-JAN-2021
DEFINITION Norovirus GII GII/Hu/ID/2016/GII.3[P12]/STM203 RNA, comlete genome.
ACCESSION LC597132
VERSION LC597132.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Utsumi,T., Lusida,M.I., Dinana,Z., Wahyuni,R.M., Soegijanto,S.,
Soetjipto, Athiyyah,A.F., Sudarmo,S.M., Ranuh,R.G., Darma,A.,
Juniastuti, Yamani,L.N., Doan,Y.H., Shimizu,H., Ishii,K.,
Matsui,C., Deng,L., Abe,T., Katayama,K. and Shoji,I.
TITLE Molecular epidemiology and genetic diversity of norovirus infection
in children hospitalized with acute gastroenteritis in East Java,
Indonesia in 2015-2019
JOURNAL Infect Genet Evol 88, 104703 (2021)
PUBMED 33401005
REMARK DOI:10.1016/j.meegid.2020.104703
Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7586)
AUTHORS Utsumi,T. and Shoji,I.
TITLE Direct Submission
JOURNAL Submitted (09-DEC-2020) Contact:Takako Utsumi Kobe University
School of Medicine, Center for Infectious Diseases; 7-5-1
Kusunoki-cho Chuo-ku, Kobe, Hyogo 650-0017, Japan
FEATURES Location/Qualifiers
source 1..7586
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="GII/Hu/ID/2016/GII.3[P12]/STM203"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Indonesia"
/collection_date="2016"
CDS 5..5104
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BCN97306.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSSMAVTFKRALGARH
KQPPPRETPQRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPD
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLCRRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
VRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLDDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLFMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTM
SELKQALKNVAIKSCQIVYGGCTYRLESDGKGDVRVDRVQNATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVGDTEEIASKDGC
PKPQDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGRPPKPSVLEAAKKTIVNVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMEELKAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQKVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGRLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5085..6731
/note="ORF2"
/codon_start=1
/product="VP1"
/protein_id="BCN97307.1"
/translation="MKMASNDATPSNDGAAGLVPEINNEAMALDPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPEFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTAGRFTPKLGSLEISTESGDFDQNQP
TRFTPVGIGVDQEADFQQWSLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRVQ"
CDS 6731..7495
/note="ORF3"
/codon_start=1
/product="VP2"
/protein_id="BCN97308.1"
/translation="MAGAFIAGLAGDIFTNTVGSLVNAGANAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWSG
TRYWAPSATSTTSMSGGFTNQAVHRTTPNFKMNQAPKPTPSSGSSVRSLSTQVTSLSS
HSSGSSRSSESTVASSLPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgctaaca gcaacaacga
61 caacgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcataaac agcctccccc gagggaaaca ccacaaaggc ctccacggcc
181 acccacccca gaactggtca aaaagatccc tcctccccca cccaacgggg aggatgagct
241 agtggtctct tacagcgcca aggatggcgt ttctggtttg cctgaactta ccactgtccg
301 gcaaccggat gagaccaaca cggcattcag tgttccccct ctcaaccaga gggagaacag
361 ggacgccaag gagccgctga ccggaacaat cctggaaatg tgggacgggg agatctatca
421 ttacggtctg tatgtggagc gaggccttgt acttggtgtg cacaaaccac cagctgccat
481 cagcctcgcc aaggttgaac tagcaccact ctctctgttt tggaggccag tgtacacacc
541 acagtatctc atctctccag acactcttag gagactgcat ggagagtcgt tcccctacac
601 agcttttgac aacaactgct atgccttctg ttgttgggtt ctggacctaa acgactcgtg
661 gttgtgcagg agaatgatcc agagaacaac tggcttcttc agaccttacc aagagtggaa
721 caggaaaccc ctccccacca tggatgactc taaattgaaa aaggtagcca acatattctt
781 gtgtgcgcta tcttcgctat tcactaggcc catcaaagac ataataggaa aggtgagacc
841 gctcaacatc cttaacatcc tggcctcatg tgattggact tttgcaggca tcgtggaatc
901 tttgatcctc ttggcagagc tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttactagatg actacgaact gcaggggcct gaggaccttg cagtggaact
1021 cgtgccagta gtgatgggag ggattggttt ggtgttagga ttcaccaaag agaagatcgg
1081 aaaaatgttg tcatctgctg cttccacctt aagagcttgt aaagaccttg gtgcatacgg
1141 actggaaatc ctaaaattgt tcatgaaatg gttcttccca aagaaagagg aagcaaatga
1201 gctagctatg gtgaggtcca tcgaggatgc ggtgctggac ctcgaagcaa ttgagaacaa
1261 ccacatgact gccctcctca aagacaaaga cagcttggca acctatatga ggacccttga
1321 cctcgaggag gagaaagcca ggaagctttc aaccaagtct gcttcacctg acatcgtggg
1381 cacaatcaat gctcttctgg cgagaatcgc cgctgcacgt tccctggtgc atcgggcgaa
1441 agaggaactc tccagcagac caagacctgt tgttgttatg atatcaggta ggccagggat
1501 agggaaaact caccttgcca gggagctagc caagaagatc gcagcttcgc tcacagggga
1561 ccagcgcgtg ggcctcatcc ctcgcaatgg cgttgaccac tgggatgcat acaagggaga
1621 aagagtcgtc ctgtgggacg attatggaat gagcaatccc atccacgacg ccctcaggtt
1681 acaggaactt gctgacacct gcccccttac gctaaactgt gacaggattg agaacaaagg
1741 aaaggtcttt gacagtgatg ccataatcat caccactaat ctagccaacc cagcaccatt
1801 ggactatgtc aactttgaag catgctcgag gcgcattgac ttcctcgtgt acgcagaagc
1861 ccctgaggtc gagaaagcaa agcgtgattt tccaggtcaa cctgacatgt ggaagaacgc
1921 atttagctct gacttctcgc acataaaact ggcgctggct ccgcaaggtg gtttcgacaa
1981 gaacggaaac accccacacg ggaaaggcgt tatgaaaact ctcaccactg gttccctcat
2041 cgcccgagca tcagggctac tccatgagag gttagatgag tacgagcttc agggcccaac
2101 tcccaccacc tttaattttg accgcaacaa ggtgcttgcg ttcagacaac ttgctgccga
2161 aaacaagtac ggattgttgg acacaatgag agttggaaaa cagctcaagg atgttaagac
2221 catgtcagag ctcaaacagg cactcaaaaa tgtcgcaatc aagagttgtc agatagtgta
2281 tggcggctgc acctataggc ttgagtctga tggcaagggt gacgtaagag ttgacagagt
2341 tcagaacgcc actgtacaga ccaacaatga gcttgccggc gcactacacc atcttaggtg
2401 cgccagaatc agatattatg tcaagtgtgt tcaggaggcc ctgtattcca tcatccaaat
2461 tgctggggct gcatttgtca ccacgcgcat tgtcaagcgc atgaacatac aagatctctg
2521 gtctaagcca caggtggggg atacagagga aatcgctagc aaggatggat gcccaaaacc
2581 ccaggatgat gaagagtttg ttgtctcatc cgatgatatc aaaaccgagg gcaagaaggg
2641 gaagaacaag tctggccgtg gcaagaagca cacagcgttc tcaagtaaag gtctcagtga
2701 tgaagagtac gatgagtaca aaagaatcag agaagaaaga aatggcaaat actccataga
2761 ggaatacctc caggatagag acaggtatta tgaggaggtg gccatcgcca gggcaaccga
2821 agaggacttc tgtgaagaag aagaggccaa gatccgacag aggatcttca ggccaacaag
2881 gaaacaacgc aaagaggaga gagcctctct cggtttggtc acaggttctg aaatcaggaa
2941 gaggaaccca gacgacttca agcctaaagg aaagctgtgg gctgatgatg acaggagtgt
3001 tgactacaat gagagactca attttgaggc cccgccaagc atctggtcga ggatagtcaa
3061 ctttggttca ggttggggct tttgggtttc ccccagcctg ttcataacat caactcatgt
3121 cataccccag ggcgcacagg agttctttgg tgtacccatc aaacaaattc agatacacaa
3181 atcaggtgaa ttctgccgcc tgaggtttcc aaagccgatc agaactgacg taacaggcat
3241 gatcttagaa gaaggtgcac ccgaagggac cgtggccaca ttactcatca aaagaccaac
3301 tggagagctc atgcccctgg cagccagaat gggaacccac gcaaccatga agatacaagg
3361 gcgcactgtt ggaggtcaaa tgggcatgct cctaacagga tccaacgcca agagtatgga
3421 cctgggcacc acaccaggtg attgtggctg cccctacatt tacaagaggg ggaatgacta
3481 cgtggtcatt ggggtccaca cagctgccgc ccgtggagga aacactgtca tctgtgccac
3541 ccaggggagc gagggagaag ccacacttga aggcggtgat agcaagggga cctactgcgg
3601 tgcaccaatc ttaggtccag gaagtgcccc aaaactcagc accaagacca agttctggag
3661 gtcatccacg gcaccactcc cacctggcac ctatgaacca gcttacctcg gcggcaagga
3721 ccccagagtc aagggtggcc cttcactaca acaagttatg agggatcaac tgaaaccgtt
3781 cactgagcct aggggtaggc caccaaaacc aagtgtgcta gaagctgcca agaaaaccat
3841 cgtcaatgtc cttgaacaga caattgaccc acctcaaaag tggtcgtttg cgcaggcatg
3901 cgcatccctt gacaagacca cttctagcgg tcatccgcac catatgcgga agaacgactg
3961 ctggaacggg gagtccttca caggaaaatt ggcagaccag gcttccaagg ccaacctgat
4021 gtttgaggag ggaaagaaca tgaccccagt ttacacgggt gcgcttaagg acgagctggt
4081 caagactgac aagatttatg gtaagatcaa aaagaggctt ctctggggtt cggacctggc
4141 gaccatgatt cggtgcgctc gagcattcgg gggtctgatg gaggaactca aagcacattg
4201 tgtcacacta cctgttaggg tgggtatgaa tatgaatgag gatggcccta tcatctttga
4261 gagacactcc agatataaat accattatga tgctgactac tcccggtggg attcaacaca
4321 acaaagagcc gtgttggcag cagccttaga aatcatggtc aagttttccc cagagccgca
4381 cctggcccaa aaggttgcag aagaccttct ttctcccagc gtgatggacg taggtgattt
4441 caaaatatca atcaatgagg gtctcccctc cggagtgccc tgcacctccc aatggaattc
4501 catcgcccac tggctcctca ctctctgtgc actctccgag gttacaaacc tgtcccctga
4561 cattattcag gccaactctc tcttttcttt ctacggtgat gatgaaattg tgagtacaga
4621 cataaaattg gacccagaaa aactgaccgc aaaacttaag gaatacgggt tgaaaccgac
4681 ccgccctgac aagactgaag ggcctcttgt catttccgaa gacctgaatg gcctaacctt
4741 cctgcggagg accgtgactc gcgacccagc aggctggttt ggaaggttgg aacagagctc
4801 aatactcaga caaatgtact ggactagggg ccccaaccat gaagatccat ctgaaacaat
4861 gataccacac tcccagagac ccatacaatt gatgtctttg ctgggtgagg cagcactcca
4921 cggcccagca ttctacagca aaatcagtaa actggtcatt gcagagctga aggaaggtgg
4981 catggatttt tacgtgccaa gacaagagcc aatgttcaga tggatgagat tctcggatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccac tccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agatccagtg gcgggtgcag cgatagcagc acccctcact ggccagcaaa
5221 atataattga tccctggatt atgaataatt ttgtgcaagc acctggtggt gagttcacag
5281 tgtctcctag gaattcccct ggtgaagtgc tcctcaattt ggaattgggc ccagagataa
5341 acccttatct ggcccatctt gctagaatgt ataatggtta tgcaggtggg tttgaagtgc
5401 aggtagtcct agctggaaat gcgtttacag caggaaagat aatctttgca gctatacccc
5461 ctaacttccc aattgataat ctaagtgcag cacagatcac aatgtgccca catgtgattg
5521 tggatgtcag gcagttggaa ccggtcaacc tccctatgcc tgacgttcgc aataacttct
5581 tccactacaa ccaagggtct gattcgaaat tgcgcttggt tgcaatgctg tacacacctc
5641 ttagggcaaa taactctggg gatgatgttt tcactgtgtc ttgtagggtg ctgactagac
5701 ctagccctga gttttcattt aacttccttg tgccacccac tgtggagtca aagacaaaac
5761 ccttcaccct cccaattctg actatctctg aaatgtctaa ttctaggttt ccagtgccga
5821 ttgattctct gcataccagc ccaactgaga atattgttgt ccagtgccaa aatggacgcg
5881 tcactcttga tggtgagttg atgggcacca ctcagctctt acctagtcaa atctgtgctt
5941 tcaggggcgt actcactaga tcaacaagca gggctagtga ccaggccgac acagcaaccc
6001 ctagattgtt taattattat tggcacatac aattggataa tctaaatggg actccttatg
6061 atcctgcaga agacatacca ggccccttgg gtacaccaga tttccggggc aaagtctttg
6121 gcgtggccag ccaaagaaac cccgacagta caactagagc acatgaagca aaggtggaca
6181 caacagctgg tcgcttcacc ccaaaactag gctcattaga gatatccact gaatctggcg
6241 actttgacca aaaccaacca acaagattca ccccagttgg cattggggtt gaccaagagg
6301 cagacttcca acaatggtcc ttacccgact actctggcca gttcactcac aacatgaact
6361 tagccccggc tgttgctccc aacttccctg gtgagcagct ccttttcttc cgctcacagc
6421 taccatcttc tggtgggcga tccaatggga ttctagactg cctggtcccc caagaatggg
6481 ttcagcactt ctaccaagaa tcagcccccg cccaaaccca ggtggctctg gttagatatg
6541 tcaaccctga cactggtaga gtgttgtttg aggccaagct gcacaaatta ggtttcatga
6601 ccatagctaa gaatggtgac tctccaataa ctgtcccccc aaatggatat tttaggtttg
6661 aatcttgggt gaacccattt tacacacttg cccccatggg aactgggaat gggcgtagaa
6721 gagttcaata atggctggag cttttatagc aggattagct ggtgatatat tcacaaatac
6781 tgtagggtct ttagttaatg caggggctaa tgctattaat caaaaagttg attttgaaaa
6841 taataaatat ttgcaaaatg cttccttcaa tcacgataag gaaatgttaa atgcacagat
6901 tgaggcaaca aagaggttac aggctgacat gattgctatc aaacaggggg ttttgaccgc
6961 tggcggcttt tcccccactg atgcagctcg cggggcaatt aatgccccca tgacaaaagt
7021 cctagattgg agtggaacaa ggtactgggc accaagtgcc acctctacaa cctcgatgtc
7081 gggtggcttc acaaaccagg ctgtgcacag aaccacacca aattttaaaa tgaaccaggc
7141 ccccaaaccc acacccagca gtgggtcttc agtgaggtca ctctcaaccc aagtcactag
7201 tctgagctca cactcgtccg ggtcgtctcg atccagcgag tctacagttg ctagctcatt
7261 accatcctct aacaggacta gggactgggt caatcagcaa aatttcaatt tggaaccaca
7321 catgcctggg tcacttagga cggcttttgt cactccacca tctagtacag cctctagttc
7381 aggcactgtc tcaaccgtgc ccaaaaatgt tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg tagaaggggg gagtcaaatg tttagtgaaa
7501 aggttatttt aaatttgatt taaattggat ttgatttgga atcttttaaa aaaaaaaaaa
7561 aaaaaaaaaa aaaaaaaaaa aaaaaa
//