Typing tool
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Typing tool
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Complete norovirus genomes
| PP549882 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS PP549882 7564 bp RNA linear VRL 02-APR-2024
DEFINITION Norovirus GII isolate CU-PBH23638, complete genome.
ACCESSION PP549882
VERSION PP549882.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7564)
AUTHORS Doungngern,P., Pittayawong-anont,C., Kraipatanapong,S.,
Waikhruea,K., Menkoon,K., Rattanatumhi,K., Supataragul,A.,
Thippamom,N., Khunnawutmanotham,W., Hirunpatrawong,P.,
Wacharapluesadee,S., Sereewit,J., Sobolik,E.B., Roychoudhury,P.,
Greninger,A.L. and Putcharoen,O.
TITLE Direct Submission
JOURNAL Submitted (28-MAR-2024) Thai Red Cross Emerging Infectious Diseases
Clinical Center, King Chulalongkorn Memorial Hospital, Rama 4 Road,
Bangkok 10330, Thailand
COMMENT ##Assembly-Data-START##
Assembly Method :: Revica v. 04af024
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7564
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CU-PBH23638"
/isolation_source="Rectal swab"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Thailand"
/collection_date="2023-12-01"
/note="genotype: GII.4 Sydney[P16]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WYA90708.1"
/translation="MKMASDDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRIAAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQSEPETKEE
ALKSEDDEFVISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVVTVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGNPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMVRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYGKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/product="p48"
mat_peptide 1001..2098
/gene="ORF1"
/product="NTPase"
mat_peptide 2099..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="WYA90709.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGTHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQITRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="WYA90710.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQVEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANFRDVVPARGPSTRPS
SSSIATSVHSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtctg acgacgctac cgttgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggct aggcccaaac agcctgcccc gagagacaaa ccacaaaagc ccccaagacc
181 accaactcct gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga
241 agaaccagtc attaggtatg aggttaagag cggaatctct ggcctgcccg agctcacaac
301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgaggga
361 aaacagggag gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat
421 atatcactat ggcctatacg tggagaaagg cctagtgttg ggtgtgcaca aaccacctgc
481 agccataagc atggcaagag tggaactgac gccgctgtca ttatactggc gtgtagtgta
541 cactccccaa tacctcatct cccctgaaac tcttaggagg ctcaacggag aggctttccc
601 ttacactgcc tttgacaaca actgctatgc cttttgttgc tgggtgctag acctcaacga
661 ctcatggctt agcaggagaa tggtgcagag aacaacgggc ttcttcagac cttaccaaga
721 gtggaacaga aaacccctgc ctaccatgga tgactccaaa attaagaagg tggcaaatat
781 attcctatgt tcattgtcca cattattcac aagacccata aaagatctca taggaaaaat
841 taaaccacta aacatattga acattctggc aacgtgtgac tggacgtttg ccgggatagt
901 ggagtctcta atattacttg ctgaactctt tggagttttc tggacacccc cagatgtgtc
961 tgctatgatc gctcccttgc tcggggatta cgagttgcag gggccagagg acctcgccgt
1021 tgaactcgtg cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa
1081 aattggcaaa atgttgtctt cagcagcatc aacactcagg gcttgcaaag accttggtgc
1141 ctatggctta gagatactaa aattggtcat gaagtggttc ttcccaaaga aagaggaggc
1201 caatgagtta gccatggtga gggccataga agatgctgta ctagatcttg aggcaataga
1261 aaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaagac
1321 actagacatg gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgccc tactagctcg aatagcagcg gccaggtcat tagtccacag
1441 ggccaaggaa gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggctt ccactctcac
1561 aggggaccag agagttggac tcataccaag aaacggtgtg gaccattggg atgcatacaa
1621 aggcgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccatcc atgatgctct
1681 tcgcatacaa gaattggctg acacgtgtcc cctcacctta aattgtgaca gaattgaaaa
1741 caaaggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaacccagc
1801 cccacttgat tatgtcaact ttgaggcttg ttccaggaga attgacttcc tggtgtacgc
1861 tgaggcacca gaagtagaga aggcaaagcg ggacttccct ggtcagccag atatgtggaa
1921 ggacgccttc aagccggact tttcacacat caagctgcaa cttgcacctc agggcggctt
1981 tgacaagaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ccaccggctc
2041 tctgatcgct cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg
2101 ccccacaatc accactttca atttcgaccg gaacagaatc gcagcattca gacaactggc
2161 tgcagaaaac aagtatggat tagtggacac catgaaagtt ggcaatcaat taaaaggagt
2221 gaaaaccatg gaagaactca aacaagcaat taggaatgtg accatcaaga ggtgccggat
2281 catttacggt ggctctacat atgaccttga atctgacggc aagggcaaag ttttggtgga
2341 aaaggtcaag aacacctctg tacagaccaa caacgagttg gccggggcct tgcaccatct
2401 caaacacgcc cgaatcagat actatgtcaa atgcgtgcaa gaagcagtct attccatcat
2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga
2521 actctggtcg aagccacaat tagatcagag tgaaccagag actaaggaag aggccctcaa
2581 gtcagaagac gacgagttcg tcatatcttc taaggacatc aaggaggaag gaaagaaggg
2641 caaaaataaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagtga
2701 tgaggagtat gacgagtata agaggataag agaagagaga aatgggaagt actctataga
2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga
2821 agaagacttc tgtgaagagg aggagatcaa aatccgtcag agaattttcc gtcccaccag
2881 gaaacaaaga aaggaagaga gggccacatt agggctagta acaggttcag aaatcagaaa
2941 gagaaaccct gatgatttca aacccaaagg gaagctgtgg gccgatgaca acagaagtgt
3001 tgactacaat gaaaaactgg actttgaggc ccccccaagc atatggtcta ggatcgtgag
3061 ctttggttct ggctggggct tctgggtatc accaagtctg ttcataacat caactcatgt
3121 gatccccgca ggcataacag aagcatttgg agtctccatt aaacaaattc agatccacaa
3181 atcaggtgaa ttttgccggt tcagattccc aaaaccaatt agaccagatg tcacaggaat
3241 gatcttggaa gaaggtgcgc ctgagggtac cgtggtaact gtgctcatca aacgccccac
3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg
3361 ccgcatggtc ggcgggcaga tgggtatgtt gctcactggg tcaaatgcta agggaatgga
3421 tttggggaca acccctggtg actgcggctg cccctacatc tataaaagag gcaacgacta
3481 tatagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac
3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg
3601 ggcacccatt ctgggccctg ggggcgcacc aaaattgagc accaaaacta aattttggag
3661 atcatcgaac acgccccttc caccagggac gtatgagcct gcctacctcg gcggccgtga
3721 tccacgtgtc aagggcgggc cctccttgca gcaggtaatg agagatcagt tgaagccatt
3781 cactgaaccc aggggcaaac ctccaagacc aagtgtatta gaagcagcca aacaaaccat
3841 cattaatgtc ctcgaacaaa ccctggatcc tccacaaaaa tggacatatg cacaggcgtg
3901 tgcctcactt gacaaaacca cctccagcgg gaacccccat cacgtccgaa agaatgaatt
3961 ctggaatggt gagaccttta ctggaaaatt ggcagaccaa gcatcaaaag caaatctaat
4021 gtttgaggaa gggaaacaca tgacaccagt gtatacagca gcactcaagg acgagctggt
4081 taagactgag aaaatctatg gaaagatcaa gaagaggctg ctctggggct ctgacttgtc
4141 caccatggtc cggtgtgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg
4201 catatcactc ccagtccgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga
4261 gaaacattcc agatataagt accactatga tgcagactac tctcgttggg attcaacaca
4321 acagagggca gtactggcag cagccttgga aatcatggtc agattctctg cagaaccaca
4381 actggcacaa atagtcgctg aggatctgct ggcccctagt gtagtagatg taggagactt
4441 caaaattaca ataaatgaag ggctcccctc tggtgttcca tgcacttctc aatggaactc
4501 cattgcacac tggctactaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga
4561 cattatacag gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga
4621 tataaaatta gaccctgaac agttaaccgc caaattgaag gagtacggcc tgaaaccaac
4681 ccgcccagac aaaactgagg gacccctgat catcagtgaa gatttggacg gactcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggtaaactgg accagagctc
4801 cattttgagg cagatgtact ggactagagg gccaaatcat gaagacccca atgagacgat
4861 gataccccat tctcagagac ccatacagct tatggcactg cttggtgaag cctctcttca
4921 cggaccctct ttctatggta aaatcagcaa attggtcata actgaactca aggaaggtgg
4981 gatggacttt tacgtgccaa gacaggaacc catgttcagg tggatgaggt tttctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaatttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtggg gagtttacag
5281 tatcccctag aaatgctcca ggtgaaatac tatggagcgc gcccctaggc cctgatctaa
5341 atccctacct atcccatttg gccaggatgt ataatggtta tgcaggtggc tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ctgggaagat tatatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttaagcccta gccaggtcac tatgttcccc catataatag
5521 tagatgttag acaattggaa cctgtgctga tccccttacc cgatgttagg aataatttct
5581 atcattataa tcagtcaaat gactccacta ttaagttgat agcaatgttg tacacaccac
5641 ttagggctaa taatgctgga gatgatgttt tcacagtctc gtgccgagtt ctcacgagac
5701 catcccccga ttttgacttc atattcttag taccacccac agttgagtca agaactaaac
5761 cattctccgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccatccctt
5821 tggaaaagtt gttcacgggc cccagcagtg catttgttgt tcaaccacaa aacggcaggt
5881 gcacaactga tggcgtgctc ctaggcacca cccaactttc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac atcacaggta ctcacaactt cactatgaat ttggcttctc
6001 aaaattggaa caactacgac ccaacagaag aaatcccagc tcccctagga actccagatt
6061 ttgtggggaa gattcaaggc atgctcaccc aaatcacaag gacagatggc tcaacacgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc
6181 aatttgaaac tgacacaaac catgactttg aagctaatca aaacacaaag ttcaccccag
6241 tcggtgttat ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat actcacaatg tacatttggc ccccgctgta gcccccacct
6361 ttccgggtga gcaacttctc ttctttagat ctaccatgcc cggatgtagc gggtatccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtatttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgttaa gatttgtgaa cccagacaca ggtagggttt
6541 tgtttgagtg caagcttcac aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat ccctcccaat ggctacttta ggtttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaatcaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatt tgcaacaggc ttcctttcaa catgataaag agatgctcca
6901 agcacaagtt gaggccacca aaaagctaca acaggaaatg atgagagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcggcccgc ggggcaatta acgcccccat
7021 gacaaaggct ttggactgga gcgggacaag gtactgggct ccagatgcta gaattacaac
7081 atataatgca ggccactttt ccacccccca accatcgggg gcactgccag gaagagctaa
7141 ttttagggat gttgtccctg ctcggggacc ctccaccaga ccttctagtt cttctattgc
7201 cacctctgtg cattcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg
7261 aaccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa
7321 taggaatttg tctcctttca tgaggggggc ccacaacata tcatttgtca ccccaccatc
7381 tagcagatcc tctagtcaag gcacagtctc aaccgtgcct aaagaaattt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgcc cacattcgta agcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaact gattattttt tcttttcttt agtgtctttt
7561 aaaa
//