Typing tool
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Typing tool
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Complete norovirus genomes
| MW305699 | GII.16 | |
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| GII.P16 |
ORF1: 1..5063
ORF2: 5044..6666
ORF3: 6666..7463
LOCUS MW305699 7522 bp RNA linear VRL 18-JUL-2024
DEFINITION Norovirus GII isolate CMH-104-05 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305699
VERSION MW305699.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7522)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A.U.A., Ford-Siltz,L.A., Green,K.Y.,
Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N.,
Ushijima,H. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses provide insights on
evolutionary dynamics and evidence of coexisting viral populations
evolving under recombination constraints
JOURNAL PLoS Pathog 17 (7), e1009744 (2021)
PUBMED 34255807
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7522)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7522
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CMH-104-05"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Thailand"
/collection_date="12-Aug-2005"
/note="genotype: GII.16[GII.P16]"
gene <1..5063
/gene="ORF1"
CDS <1..5063
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59433.1"
/translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDNSQK
PPRPPTPELVKRIPPPPPNGEEEPAIRFEVKSGISGLPELTTVPQLDVTNTAFSVPPL
SLRENKEAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAKVEMTPLSL
YWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTT
GFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGKIKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGPEDIVVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEASELAMV
RAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARRLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAKKVASTLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIEN
KGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEF
ELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTMEELKQAIKNVS
IKRCQIIYNGSTFDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLRSARIRYYVKCV
QEAVYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSEPETKEEAPKLEDDEFIISS
KDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDR
YYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDF
KPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAG
ITEAFGVPIKQVQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGE
LMPLAARMGTHATMRIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDY
IVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKF
WRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAA
KQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHTRKNEFWNGETFIGKLADQA
SKANLMYEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMVRCARAFGGL
MDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALE
IMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWNSITHWLLTL
CALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREYGLKPTRPDKTE
GPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHS
QRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLST
WEGDRNLAPSFVNEDGVE"
mat_peptide <1..959
/gene="ORF1"
/product="p48"
mat_peptide 960..2057
/gene="ORF1"
/product="NTPase"
mat_peptide 2058..2588
/gene="ORF1"
/product="p22"
mat_peptide 2589..2987
/gene="ORF1"
/product="VPg"
mat_peptide 2988..3530
/gene="ORF1"
/product="Pro"
mat_peptide 3531..5060
/gene="ORF1"
/product="RdRp"
gene 5044..6666
/gene="ORF2"
CDS 5044..6666
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59434.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEILLNLELGPELNPYLAHLARMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAIPPHFPVDNLSPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQSDQRMRLIAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFSVPVLTLNELTNSRFPVPIDAMYTSPNDSIVVQPQNGRATIDGELLGTT
QLIPSGICSFRGKITTHLSDDRHLWNIQVSNLNGTPFDPTDDVPAPLGMPDFSGQIFG
VVSQRDTGTNPANRAHDAVLATYSAKYTPKLGSVQIGTWDTEDLLERQPVKFTPVGLN
EIGQDKHFDQWVLPNYSGALGLNMHLAPAVSPLFPGERLLFFRSYIPLKGGHGDPFID
CLVPQEWIQHFYQESAPAQSSVALLRYVNPDTGRTLFEAKLHKEGFITVSSTENRPVI
VPPNGYFRFDSWVNQFYSLAPMGTGNGRRRMQ"
gene 6666..7463
/gene="ORF3"
CDS 6666..7463
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59435.1"
/translation="MAGAFIAGLAGDIVTNGIGSLVNAGANAINQKVDFENNKQLQQA
SFNHDKEMLQAQIQATKQLQADIISIRQGVLSAGGFSPTDAARGAVNAPMTQVLDWNG
TRHWAPGASRTTSFSGGFTNSTRARTVEPPKSSPSVQNTLTSASRSSSTVSSSSTRST
VVTSSSTAPSVRSSVTRNLPRSASQSVSSVSSRTGDWVQNQNRMLEPYLRGSLQTAFV
SPPSSKASSNGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRRRGESQA"
ORIGIN
1 ccgttgcttg caacaacaac aacgacaagg aaaaatcttc gggtgaaggc ttatttacaa
61 atatgtcttc caccctaaag aaagccctcg gggcccggcc taaacagcct gccccgaggg
121 acaactcaca aaagccccca agaccaccta cgcccgagtt ggttaagaga ataccccctc
181 ctccacctaa tggcgaagaa gaaccagcca ttaggtttga ggttaagagt ggaatctctg
241 gtctgcctga gctcacgaca gttccccaac tggatgtgac caatacggca ttcagtgtcc
301 caccgctgag cttgagagaa aacaaggagg ccaaggaacc gctgactggg gcaatattag
361 agatgtggga tggagagata taccactatg gtttgtatgt ggagaaaggc ttagtgttgg
421 gtgtgcacaa accacctgca gctataagta tggcaaaggt ggaaatgacg ccgctgtcat
481 tatactggcg tgtggtgtac accccccaat acctcatttc ccctgacact cttaagaggc
541 ttaacgggga agcattccct tacactgcct ttgacaacaa ctgttatgcc ttttgttgct
601 gggtgttaga ccttaatgac tcatggctca gcagaaggat ggtgcaaaga acaacaggct
661 tcttcagacc ctaccaagag tggaacagaa aacccctacc cactatggat gactcaaaga
721 ttaagaaggt ggcaaacatt ttcttatgtt cattgtccac actgttcacc agacctataa
781 aagacatcat agggaaaatc aaaccactaa acattttgaa cattctggca acgtgtgact
841 ggacgttcgc cggaatcgta gagtctctaa tactacttgc tgaactcttt ggagttttct
901 ggacaccccc agatgtgtct gctatgatcg cccccttact tggcgaatac gagctgcaag
961 ggcccgaaga catcgtcgtt gagctcgtac ctgtagtgat gggagggatt ggtttggtgc
1021 taggattcac caaagagaaa attggcaaaa tgctatcctc agcagcatca acgctcaggg
1081 cttgcaaaga ccttggtgct tatggtttag agatacttaa attggtcatg aaatggtttt
1141 tcccaaagaa agaagaggcc agtgaactag ccatggtgag ggcaatagag gatgctgtac
1201 tggatcttga agcgatagaa aacaaccaca tgacaactct gctgaaagat aaagacagcc
1261 ttgcaaccta catgaagaca ctggacctag aggaagaaaa agccaggaga ttgtccacaa
1321 agtctgcatc ccctgacata gttggaacaa tcaatgccct gctggctcga atagcagcgg
1381 ctagatcact agtccacagg gccaaagagg agctgtctag caggatcagg ccagttgttg
1441 ttatgatttc tggcaagcca gggataggca agactcacct agccagggag gtggcgaaaa
1501 aggtggcatc cactctcacg ggagatcaaa gagtcggact cataccgaga aacggtgtag
1561 accattggga tgcatacaaa ggtgagaggg tcgtgttgtg ggacgactac ggcatgagta
1621 accccatcca tgatgctctg cgcatacagg aattggccga cacatgtccc ctcaccttaa
1681 attgtgatag aattgaaaat aagggaaaag tttttgacag tgaagtcata ataatcacaa
1741 caaaccttgc caacccagct ccccttgatt atgtcaactt tgaggcctgt tccaggagaa
1801 ttgacttcct ggtatacgcc gaagcaccag aagtggaaaa ggcaaaacga gacttccctg
1861 gtcagccaga tatgtggaag gacgccttca aagcggactt ttcgcatatc aagttacaac
1921 ttgcgcctca gggcggtttt gacaagaacg gcaacacccc acatggtaaa ggagtgatga
1981 agaccctcac cactggttct ctgattgccc gtgcgtcagg tttactgcat gagaggatgg
2041 atgaatttga actccagggc cccacaatca ccacttttaa tttcgaccga aacagaatca
2101 ccgcctttag acagttggct gcagaaaata agtatgggtt ggtggacacc atgagagttg
2161 gcaaccaact gaaaggggtg aaaaccatgg aagaactcaa gcaagcaatc aagaatgtat
2221 ccatcaagag gtgccagatt atctataatg gctccacgtt cgaccttgag tctgacggca
2281 agggcaaggt tttagtggaa aaggtcaaaa acacctccgt tcagaccaac aacgagctgg
2341 ccggggccct gcatcacctc agaagtgctc gaatcaggta ttatgtcaaa tgtgtgcaag
2401 aagcagtcta ctccatccta caaattgccg gcgctgcgtt tgtcaccaca cgtattgcgc
2461 gccgtatgaa catacaagaa ctttggtcaa agccaccatt agaccaaagt gagccagaga
2521 ctaaagaaga ggcccccaag ttagaagatg atgagttcat tatatcctcc aaagacatca
2581 aggaggaagg aaagaagggc aaaaataaga ctggccgtgg caagaaacac actgcattct
2641 cgagcaaggg cttgagcgat gaggagtatg acgagtacaa gagaataaga gaagagagaa
2701 atggaaagta ctctatagag gagtatcttc aagacagaga caggtactat gaggagctcg
2761 ccatcgccaa ggccacggaa gaagacttct gcgaggaaga agaaattaaa atccgccaga
2821 ggatcttccg ccctaccaga aaacaaagga aggaagaaag ggccacgcta ggactagtga
2881 ctggttcaga aatcagaaag agaaaccctg atgacttcaa acccaaaggg aagttgtggg
2941 ccgacgacaa cagaagtgtt gactacaatg aaaagttgga ctttgaggcc cccccaagca
3001 tatggtccag gattgtgagc tttggttccg gttggggctt ctgggtgtca ccaagcctgt
3061 tcataacatc aactcatgta atccctgcgg gcataacaga ggcatttgga gtccccatca
3121 aacaagtcca agtccacaaa tcaggtgagt tttgccggtt cagattccca aaaccaatta
3181 gaccagatgt gacaggaatg atcctggaag agggtgcgcc agagggcact gtggcaaccg
3241 tactaatcaa acgccccacc ggagaactca tgcccctcgc agccagaatg ggaacacacg
3301 cgaccatgag aattcagggt cgcatggttg gcgggcagat gggcatgttg ctcactggtt
3361 caaatgctaa gggtatggat ttgggaacaa ctcccggtga ctgtggctgc ccgtacatct
3421 acaaaagggg taatgactat atagtcattg gagtgcacac agcagcagcc cgtggtggaa
3481 atactgtcat ctgcgccaca cagggaagtg agggtgaagc gaccctcgag ggtggagacg
3541 acaaaggaac atactgcggg gcacccattc tgggccctgg aggagcacca aaattgagca
3601 ccaaaaccaa attttggagg tcatcgaaca cgcccctccc accagggacg tatgagcctg
3661 cctatcttgg tggtcgtgac ccgcgtgtga agggcggacc ctctttgcag caagtcatga
3721 gagatcagtt gaagcccttc actgagccca ggggtaaacc tccaagacct agtgtgctgg
3781 aggcagctaa acaaaccatc atcaacgtcc ttgagcaaac tctggatccc ccacaaaagt
3841 ggacatacgc acaggcgtgt gcttcgcttg ataagaccac ctctagtggg cacccccatc
3901 acacccgaaa gaatgaattc tggaatggtg agacctttat tggcaagttg gcagaccaag
3961 catcaaaggc aaacctgatg tatgaggaag ggaaacacat gacaccagtg tacacagcag
4021 ccctcaagga cgagttggtg aaaactgaca aaatctatgg gaagatcaag aagagactgc
4081 tttggggctc tgacttgtcc accatggtcc gatgtgctag ggcctttggt gggctcatgg
4141 atgagatgaa ggcacactgc atatcactcc cagtccgagt tggtatgaac atgaatgaag
4201 atggtccaat aatatttgag aagcattcca gatataagta ccattatgat gcagactact
4261 cccgctggga ttcaacacaa caaagggctg ttctagcagc ggctttggaa ataatggtca
4321 gattctctgc agaaccacaa ctggcacaaa cagtcgctga agacctgctg gcccctagtg
4381 tggtagatgt aggagacttc aaaatttcaa taaatgaggg gcttccttct ggtgtaccat
4441 gcacttccca gtggaactcc atcacacatt ggctgttaac tctctgtgct ttgtctgaag
4501 tcaccaacct gtcccctgac atcgtgcagg caaattccat gttctcgttt tacggtgatg
4561 acgagattgt cagcaccgat ataaaattag accctgaaaa gttaaccacc aaattgaggg
4621 aatatggtct gaaaccaacc cgcccagata aaactgaggg accactaatt atcagcgagg
4681 atttggacgg actcaccttc ctccggagaa cagtttcccg tgacccagct ggctggtttg
4741 gaaagttaga tcaaagctca atactaaggc agatgtactg gaccagagga ccaaaccatg
4801 aagaccccaa tgaaacaatg ataccccact ctcaaagacc catacagctt atggcactgc
4861 ttggtgaggc ttccctccat ggaccctctt tctacagcaa aattagtaaa ttggtcataa
4921 ctgaactcaa agaaggtggg atggattttt acgtgccgag gcaggaacct atgttcaggt
4981 ggatgaggtt ttctgacttg agcacgtggg agggcgatcg caatctggct cccagttttg
5041 tgaatgaaga tggcgtcgaa tgacgccgct ccatctaatg atggtgcagc cggtctcgta
5101 ccagaggtca acaacgagac aatggcactt gaaccagttg cgggagcttc aattgctgcc
5161 cctttaactg gtcaaaataa tgtaatagac ccctggatta gattaaattt tgtacaagcc
5221 cccaatggtg agtttacggt ttccccccga aactcgcctg gtgaaatttt gctaaatttg
5281 gagttagggc ctgaattgaa tccatactta gcccatttag caagaatgta taatggttat
5341 gcaggtgggg ttgaggtgca ggtactgctg gctggaaatg cgtttacagc aggcaaactg
5401 gtatttgcag caatcccccc tcattttcca gtagataatt tgagccctgg tcagatcact
5461 atgttccccc atgtgattat tgatgttaga acacttgagc cagtcttatt accattacct
5521 gatgttagga ataatttctt tcattataat cagcagagtg atcagcgcat gaggcttatt
5581 gctatgcttt atacccccct tagatctaat ggttcaggtg atgatgtctt cactgtttca
5641 tgtagggtcc taaccaggcc atcccctgac tttgatttta attatttggt tcctccaaca
5701 gttgaatcta aaactaaacc cttctcagtc ccagtgctga cccttaatga actgaccaac
5761 tctcgatttc ctgtcccgat tgatgccatg tacaccagcc ctaatgattc aattgtggtc
5821 caaccccaaa atggaagggc aaccatagac ggtgagttgc ttggcaccac tcagctcatc
5881 cccagtggta tctgctcatt tagagggaaa atcacaacac acttgtcaga tgacaggcac
5941 ttgtggaaca tccaagtctc caatttgaat ggcactccgt ttgacccaac agacgacgtg
6001 cccgcaccac tgggtatgcc agacttctct ggacaaatat ttggggtagt tagccaaagg
6061 gatacaggca ccaaccccgc aaacagagct catgacgctg ttcttgcaac ctacagcgcc
6121 aaatatactc ccaagctcgg ttcagtccaa attggaacat gggacaccga ggatttactt
6181 gaaagacagc ctgtaaaatt cacgcccgtt ggtctcaatg aaattgggca ggacaagcat
6241 tttgaccaat gggtgttgcc aaattattct ggtgccttag gactcaacat gcacctggct
6301 cctgctgtgt ccccactctt tcctggagag agattattgt tctttagatc atatatacct
6361 ctaaagggtg gccatgggga tccgttcatt gattgtctag tgccacaaga atggatacaa
6421 cacttttatc aagaatcagc cccagcgcaa tcctcggtgg ctctactgag gtatgtgaat
6481 ccagacacag gtcgcaccct atttgaggcc aaattacaca aggaagggtt tatcaccgtc
6541 tctagtacgg aaaataggcc tgtgattgtc cccccaaatg gttactttag gtttgactct
6601 tgggttaacc aattctattc actagccccc atgggaactg gcaatgggcg cagaaggatg
6661 cagtaatggc tggagctttc atagcaggac ttgctggtga cattgtcact aatggcattg
6721 gttcgcttgt gaacgctgga gccaatgcta taaaccaaaa agttgatttt gaaaataaca
6781 aacaactaca acaggcttct tttaatcatg acaaagagat gctgcaagcc caaatccaag
6841 ccaccaaaca gctacaggct gacataattt caatcagaca aggggttttg tccgcgggcg
6901 gcttttcccc tactgatgct gcaaggggtg cagtcaacgc accaatgacc caagtgttgg
6961 actggaatgg gactagacat tgggcccctg gagcctcaag aactaccagt ttctctggtg
7021 ggttcaccaa ctccacccgt gccagaacag ttgagccacc taaaagttcc ccctctgttc
7081 aaaatacctt gacttctgct tctagatcta gctctactgt ctcatcttct tccacccgtt
7141 cgactgtggt tactagttcc tctactgccc catctgttag atcttctgta actagaaatt
7201 taccacgcag tgcttctcaa tctgtttctt ctgtttcttc tcgcactggt gattgggtgc
7261 aaaatcaaaa tagaatgctg gagccatacc tgagggggtc gttgcaaaca gccttcgtgt
7321 cgccgccctc cagtaaggcc tctagtaatg gcactgtctc aactgtgcca aaagaagttt
7381 tggactcctg gacatctgcg ttcaacaccc gcagacagcc gctcttcgct cacctccgtc
7441 ggagggggga gtcacaagct tagtgaaaag aattagattt tctttttctt tcttttcttt
7501 tgttgaaaat cttatgtctt tt
//