Typing tool
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Typing tool
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Complete norovirus genomes
| MW019621 | GII.4 | |
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| GII.P31 |
ORF1: 1..5097
ORF2: 5078..6700
ORF3: 6700..7128
LOCUS MW019621 7128 bp RNA linear VRL 29-OCT-2020
DEFINITION Norovirus GII isolate 4020 nonstructural polyprotein (ORF1) gene,
partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene,
partial cds.
ACCESSION MW019621
VERSION MW019621.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7128)
AUTHORS Makhaola,K., Moyo,S. and Kebaabetswe,L.P.
TITLE Near complete genome next generation sequence analysis of norovirus
GII.4 from Botswana
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7128)
AUTHORS Makhaola,K., Moyo,S. and Kebaabetswe,L.P.
TITLE Direct Submission
JOURNAL Submitted (19-SEP-2020) Biosciences and Biotechnology, Botswana
International University of Science and Technology, Khurumela,
Palapye 00, Botswana
COMMENT ##Assembly-Data-START##
Assembly Method :: Genome Detective v. 1.126
Sequencing Technology :: Oxford Nanopore(MinION)
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7128
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="4020"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Botswana: Mochudi"
/collection_date="25-Oct-2017"
/note="genotype: GII.4 Sydney[GII.P31]"
gene <1..5097
/gene="ORF1"
CDS <1..5097
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QNT38524.1"
/translation="KMASNDASAAAAANSNNDIAKSSSDGVFSNMAVTFKRALGARPK
QPPPKEIPTRPPRPPTPELVKKIPPPPPNGEEELVVSYSAKDGVSGLPELTTVSQPEE
TNTAFSVPPLNQRENRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISL
AKVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMIQRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKL
KPLNILNILATCDWTFPGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTK
SASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELA
RKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCP
LTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA
KRDFPGQPDMWKNAFSPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS
GLLHERLDEYELQGPVLTTFNFDRNKVLAFRQLAAENKYGLMDTMRIGKQLKDVKTMP
DLKQALKNVAIKKCQIVYGGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRC
ARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEETASKDGCP
KPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIRDERNGK
YSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVT
GTEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPS
LFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGT
VATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNRGTYCGAPILGP
GSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWN
GESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLA
TMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKE
YGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPN
HEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..987
/gene="ORF1"
/product="p48"
mat_peptide 988..2085
/gene="ORF1"
/product="NTPase"
mat_peptide 2086..2622
/gene="ORF1"
/product="p22"
mat_peptide 2623..3021
/gene="ORF1"
/product="VPg"
mat_peptide 3022..3564
/gene="ORF1"
/product="Pro"
mat_peptide 3565..5094
/gene="ORF1"
/product="RdRp"
gene 5078..6700
/gene="ORF2"
CDS 5078..6700
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QNT38525.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPGLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASLNWNSYDPTEEIPAPLGTPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHQNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6700..>7128
/gene="ORF3"
CDS 6700..>7128
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QNT38526.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARITTYNAGRFSTPQTSVALPGR"
ORIGIN
1 aagatggcgt ctaacgacgc ttccgctgcc gctgctgcca acagcaacaa cgacatcgca
61 aaatcttcaa gtgacggtgt gttttctaac atggctgtca cttttaaacg ggccctcggg
121 gcgcggccta aacaaccgcc cccgaaggaa ataccaacca gacccccacg accacccaca
181 ccagaattgg tcaaaaagat cccccctccc ccacccaacg gggaggaaga attagtggtt
241 tcttacagcg ccaaagacgg cgtttccgga ttgcctgagc ttaccactgt cagccaaccg
301 gaagaaacca atacggcgtt cagtgttccc ccgctcaatc aaagggagaa tagggacgcc
361 aaggaaccac taactgggac aattattgaa atgtgggatg gagaaatcta ccattacggc
421 ctgtacgtgg aacgaggtct tatacttggt gtgcacaagc caccagcagc catcagcctt
481 gccaaggtcg agttaacacc actctctttg ttctggagac ctgtgtacac cccccagtat
541 ctcatctctc cagacactct caggagacta catggagagt cattccccta caccgcattt
601 gacaacaatt gctacgcctt ctgctgttgg gtattagacc taaacgactc atggctaagt
661 aggagaatga ttcagagaac aacaggtttc ttcagaccat accaggagtg gaacaggaaa
721 cccctcccca ctatggatga ctccaaattg aagaaggtag ccaacatatt cttgtgcacc
781 ctgtcctcac tattcaccag acccattaag gacataatag ggaaattgaa acctcttaac
841 attctcaata ttctggctac atgtgattgg accttcccag gtatagtgga atccctaata
901 ctcttggcag agctctttgg agttttctgg acacccccag atgtgtctgc gatgatcgcc
961 cccttactag gtgattatga actgcaagga cctgaggacc ttgcagtaga actagtccca
1021 gtggtgatgg gggggatagg tttggtgcta ggatttacca aagagaaaat tggaaagatg
1081 ctgtcgtccg ccgcatccac tttgagagcc tgtaaagatc ttggagcgta cggactggaa
1141 attttaaaat tagtcatgaa atggttcttc ccaaagaaag aggaagcaaa tgaactggct
1201 atggtgagat ccatcgagga cgcagtgctg gacctcgagg caattgaaaa caaccacatg
1261 accaccctgc tcaaagataa agacagcttg gcaacttaca tgagaaccct tgaccttgag
1321 gaggagaaag ccagaaaact ctcaaccaaa tctgcttcac ctgatattgt gggcacaatc
1381 aactctcttc ttgcacgaat cgctgctgca cgttctctag tgcatcgggc gaaagaagag
1441 ctctccagca ggccgagacc tgttgttgtg atgatatcgg gaaaaccagg gatagggaaa
1501 acccaccttg ccagggagtt ggccaggaag atcgcagcct ccctcacagg ggaccagcgt
1561 gtgggcctga tcccacgcaa tggcgttgac cactgggacg catacaaggg tgaaagagtt
1621 gtcctatggg acgactatgg gatgagcaac cccatacacg atgccctcag gttgcaggaa
1681 cttgctgaca cttgccccct cacgctaaat tgtgacagga ttgagaacaa aggaaaagtc
1741 tttgatagtg atgccataat tatcaccacc aatctggcca acccagcacc actggattat
1801 gtcaattttg aagcgtgctc gaggcgcatt gatttcctcg tgtacgcgga ggctcctgag
1861 gtggagaagg caaaacgcga cttcccaggc caacctgaca tgtggaagaa cgctttcagt
1921 cctgacttct cacacataaa actggcattg gctccacagg gtggttttga caagaacggc
1981 aataccccgc atggaaaagg tgttatgaag actctcacca ctggctccct cattgcccga
2041 gcatcaggat tactccatga gagactagat gaatatgaat tacaaggccc agtcctcact
2101 accttcaact ttgaccgcaa caaggtgctt gcatttagac agcttgctgc tgaaaacaag
2161 tatgggttga tggacacaat gagaattgga aaacagctta aggatgtcaa gaccatgcca
2221 gacctcaaac aagcactcaa gaatgttgcg atcaagaagt gccagatagt gtatggtggt
2281 agcacctaca cgcttgaggc cgatggcaag ggtagtgtga aggttgacaa agtgcagagt
2341 gccaccgtgc aaactaacaa tgaactagcc ggcgccctgc accacctgag gtgcgccaga
2401 atcaggtact atgtcaagtg tgtccaggag gcattgtatt ccatcatcca aatcgctggg
2461 gccgcgtttg tcaccacgcg catcgccaag cgcatgaaca tacaaaacct ctggtccaag
2521 ccacaggtgg aagacacaga agagacggcc agcaaagatg gttgcccaaa acccaaagat
2581 gatgaagagt tcgtcgtttc atccgacgac atcaagactg agggcaagaa agggaagaac
2641 aagtccggcc gtggcaagaa gcacacagcc ttctcaagca aagggctcag tgatgaggag
2701 tacgatgagt acaagagaat cagagatgaa aggaatggta agtactccat agaagagtac
2761 cttcaggaca gagacaagta ctatgaggag gtggccattg ccagggcaac tgaagaggac
2821 ttctgtgaag aagaagaggc caaaatccgg cagagaattt ttagaccaac aaggaaacaa
2881 cgtaaagaag agagggcctc tttaggcttg gtcacaggca cagagatcag gaagagaaac
2941 ccagaagact tcaaacccaa gggaaagctg tgggctgatg atgacagaag tgttgactac
3001 aacgagaaac tcaattttga ggccccacca agcatctggt cgcggatagt caactttggt
3061 tcaggttggg gcttctgggt ctcccccagt ttgtttataa catcaaccca tgtcatacct
3121 caaggtgcaa aagagttctt cggagtcccc atcaaacaaa tccagataca caaatcaggt
3181 gaattctgcc gactgagatt cccaaaacca atcagaacgg atgtgacggg catgattctg
3241 gaagaaggtg cgccagaagg aaccgtggcc acactgctca tcaagagacc aactggagag
3301 ctcatgcctt tggcagctag aatgggaacc catgcaacca tgaagatcca ggggcgcaca
3361 gttgggggac aaatgggtat gctcttgaca ggatccaacg ccaagagtat ggacttgggc
3421 acaacaccag gcgactgcgg ttgtccctac atctacaaaa gagggaatga ctatgtggtc
3481 ataggagtcc atacagccgc tgcccgtgga ggaaacactg tcatctgtgc cacccagggt
3541 agtgagggag aagccacact tgaaggaggt gacaacagag gaacgtactg tggtgcacca
3601 atcttgggcc cagggagtgc tccaaaactc agcaccaaga ctaagttttg gagatcatcc
3661 acaacgccac tcccaccagg cacctacgag ccagcctacc tcggtggcaa ggatcccaga
3721 gtcaaaggtg gtccttcatt gcaacaagtt atgagggacc agctaaaacc atttacagag
3781 cccagaggca aaccaccaag accaaatgtg ttggaagctg ccaagaaaac catcattaat
3841 gttcttgagc aaacaattga cccaccccaa aaatggtcat tcgcgcaagc atgcgcatcc
3901 cttgacaaaa ccacctccag cggccaccca caccacatgc ggaaaaacga ttgctggaat
3961 ggggagtcct ttacaggaaa attggcagat caggcctcca aggccaacct aatgtttgaa
4021 gagggaaaga acatgactcc agtctacaca ggtgcactta aagatgaact ggtgaagact
4081 gacaaaattt atggtaagat caagaagagg ctcctgtggg gctcggacct ggcgaccatg
4141 atacggtgcg cccgggcttt tgggggcctc atggatgaac tcaaggctca ctgtgtcacc
4201 cttcctgtca gagttggtat gaacatgaat gaggatggcc ccataatctt tgagaagcac
4261 tccagatata aatatcacta tgatgctgat tactccaggt gggactcaac acaacaaagg
4321 gatgtgctag cagcagcact agaaatcatg gttaagtttt ctccagaacc acacttggcc
4381 cagatagttg cagaagacct cctttcccct agtgtaatgg atgtgggtga ctttcaaata
4441 tcaataagtg aggggcttcc ctccggggtg ccttgcacct cccagtggaa ctccatcgcc
4501 cactggctcc tcaccctttg tgcactctct gaagtcacgg acctgtctcc tgacatcatc
4561 caggccaact cccttttctc cttctatggt gatgacgaga ttgtgagtac agacataaag
4621 ttggacccag agaagctgac agcaaaactc aaggagtacg ggctgaagcc aacccgcccc
4681 gacaaaactg agggacccct tgttatctct gaagacctgg atggcctgac attcctccgg
4741 aggactgtga cccgtgatcc agctggctgg tttggaaaat tggaacaaag ctcaattctc
4801 aggcaaatgt actggaccag aggtcccaac catgaagatc catctgagac aatgatacca
4861 cactcccaaa gacccataca attgatgtcc ttgctgggcg aggctgcact ccacggccca
4921 gcattttaca gcaaaattag caaattggtc attgcagaat tgaaggaagg tggcatggat
4981 ttttacgtgc ccaggcaaga gccaatgttc agatggatga gattctcaga tctgagcacg
5041 tgggagggcg atcgcaatct ggctcccagt tttgtgaatg aagatggcgt cgagtgacgc
5101 caacccatct gatgggtccg cagccaacct cgtcccagag gtcaacaatg aggttatggc
5161 tctggagccc gttgttggtg ccgctattgc ggcacctgta gcgggccagc aaaatgtaat
5221 tgacccctgg attagaaata attttgtaca agcccctggt ggagagttta cagtatcccc
5281 tagaaacgct ccaggtgaaa tactatggag cgcgccctta ggccccggtc taaatcccta
5341 cctatcccat ttggccagaa tgtacaatgg ttatgcaggt ggttttgaag tgcaggtaat
5401 tctcgcgggg aacgcgttca ccgctgggaa ggtcatattt gccgcagtcc caccaaattt
5461 cccaactgaa ggcttgagcc ccagccaggt cactatgttc ccccatatag tagtggatgt
5521 taggcaacta gaacctgtgt tgattcccct acccgacgtt aggaacaatt tctatcacta
5581 caatcagtca aatgacccca ctattaagtt gatagcaatg ctgtatacac cacttagggc
5641 taataatgct ggggatgatg tcttcacagt ctcttgccgg gtcctcacga gaccatcccc
5701 cgattttgat tttatatttc tagtgccacc cacagttgag tcaagaacta agccattctc
5761 tgtcccggtc ttaactgttg aggagatgac caattcaaga ttccccatcc ctttggaaaa
5821 gttgttcacg ggtcccagca gtgcctttgt tgttcaacca caaaacggca ggtgtacgac
5881 tgatggcgtg ctcctaggta ccacccaact gtctcctgtc aacatctgca ccttcagagg
5941 ggatgtcacc cacatcacag gtagtcgtaa ctacacaatg aatttggctt ctctaaattg
6001 gaacagttac gacccaacag aagaaatccc agcccctctg ggaactccag attttgtagg
6061 gaaaatccaa ggtatgctca cccaaaccac aagggcagat ggctcaacac gcggccacaa
6121 agctacagtg tacactggga gcgccgattt ttctccaaaa ttgggtagag ttcaatttga
6181 aactgacaca gaccatgatt ttgaagccaa ccaaaacaca aagttcaccc cagtcggtgt
6241 catccaagat ggcagcacca cccatcaaaa tgaaccccaa cagtgggtgc tcccaagtta
6301 ctcaggcaga aacactccca acgtgcatct ggcccccgct gtagccccca cttttccagg
6361 tgagcaactc cttttcttca gatccaccat gcccggatgc agcgggtatc ccaatatgga
6421 tttggactgt ctactccccc aggaatgggt gcagtacttc taccaagagg cagccccagc
6481 acaatctgat gtggctctgc taagatttgt gaatccagac acaggtaggg ttttgtttga
6541 gtgtaagctt cataagtcag gctatgttac agtggctcac actggccaac atgatttggt
6601 tatccccccc aatggttatt ttaggtttga ttcctgggtc aaccagttct acacgcttgc
6661 ccccatggga aatggaacgg ggcgtagacg tgcagtataa tggctggagc tttctttgct
6721 ggattggcat ctgatgtcct tggctctgga cttggttccc ttatcaatgc tggggctggg
6781 gccatcaacc aaaaagttga gtttgaaaat aacagaaaat tacaacaagc atccttccaa
6841 tttagcagta atctacaaca ggcttccttc caacatgaca aagagatgct ccaggcacaa
6901 attgaggcca ccaaaaagct acaacaggaa atgatgaaag ttaaacaggc agtgctccta
6961 gagggtgggt tctctgagac agatgcagcc cgcggggcaa tcaacgcccc tatgacaaag
7021 actttggact ggagcgggac aaggtactgg gctcccgatg ctaggattac aacatacaat
7081 gcaggccgct tttccacccc tcaaacatcg gttgcactac caggaagg
//