Typing tool
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Typing tool
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Complete norovirus genomes
| PP549885 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS PP549885 7562 bp RNA linear VRL 02-APR-2024
DEFINITION Norovirus GII isolate CU-PBH24028, complete genome.
ACCESSION PP549885
VERSION PP549885.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7562)
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..7562
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CU-PBH24028"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Thailand"
/collection_date="2024-01-15"
/note="genotype: GII.4 Sydney[P16]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="WYA90717.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQLAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEVNELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRIAAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQSEPETREE
ALKSEDDEFVISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGNPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMVRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
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="WYA90718.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRSNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
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="WYA90719.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANFRDAVPARGPATRPS
NSSTATSVHSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cgttgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcctccacct taaagaaagc
121 cctcggggct aggcccaaac agcttgcccc gagagacaaa ccacaaaagc ccccaagacc
181 accaactcct gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaaga
241 agaaccagtc attaggtatg aggttaagag cggaatctct ggcctgcccg agctcacaac
301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga
361 aaacagggag gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat
421 atatcactat ggcctatacg tggagaaagg cctagtgttg ggtgtacaca aaccacctgc
481 agccataagc atggcaagag tggaactgac gccgctgtca ttatactggc gtgtagtgta
541 cactccccaa tacctcatct cccctgaaac tcttaggagg ctcaatgggg aggctttccc
601 ttacaccgcc tttgacaaca actgctatgc cttttgttgc tgggtgctag acctcaacga
661 ctcatggctt agcaggagaa tggtgcagag aacaacgggc ttcttcagac cttaccaaga
721 gtggaacaga aaacccctgc ctaccatgga tgactccaaa attaagaagg tggcaaatat
781 attcctatgc tcattgtcca cattattcac cagacccata aaagatctca taggaaaaat
841 taaaccatta aacatattga acattttggc aacgtgtgac tggacgtttg ccgggatcgt
901 ggagtctcta atattacttg ctgaactctt cggagttttc tggacacccc cagatgtgtc
961 tgctatgatc gctcccttgc tcggggacta cgagttgcag gggccagagg acctcgccgt
1021 tgaactcgtg cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa
1081 aattggcaaa atgttgtctt cagcagcatc aacactcagg gcttgcaaag atcttggtgc
1141 ctatggctta gagatactaa aattggtcat gaagtggttc ttcccaaaga aagaggaggt
1201 caatgagcta gccatggtga gggccataga ggatgctgta ctagatcttg aggcaataga
1261 aaataaccac atgacaaccc tgttgaaaga caaagatagc ttagcaacat acatgaaaac
1321 actagacatg gaggaggaaa aagccagaag gttgtccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgccc tactggctcg aatagcagcg gccaggtcat tagtccacag
1441 ggccaaggaa gagctatcca gcaggataag accagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcact tggccaggga ggtggcaaga aaggtggctt ccactctcac
1561 aggggaccag agagttggac tcataccaag aaacggtgtg gaccactggg atgcatacaa
1621 aggcgagaga gtcgtgctgt gggacgacta tggtatgagt aaccccatcc atgatgctct
1681 tcgcatacaa gaattggctg atacgtgtcc cctcacttta aattgtgaca gaattgaaaa
1741 taaaggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaacccagc
1801 cccacttgat tatgtcaact ttgaggcttg ttccaggaga attgacttcc tggtgtacgc
1861 tgaggcacca gaagtagaga aggcaaagcg agacttccct ggtcagccag atatgtggaa
1921 ggacgccttc aagccggact tttcacacat caagctgcaa cttgcacctc agggcggctt
1981 tgacaagaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ctaccggctc
2041 tctgatcgct cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg
2101 ccccacaatc accaccttca atttcgaccg gaacagaatc gcagcattta 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 gaagcggtct attccatcat
2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgtattgca cgccgcatga acatacaaga
2521 actctggtcg aagccacaat tagaccaaag tgaaccagag actagggaag aggcccttaa
2581 gtcagaagac gacgagttcg tcatatcttc taaggacatc aaggaggaag gaaagaaggg
2641 caagaataaa actggccgtg gcaagaaaca cactgcattc tccagcaagg gcttgagtga
2701 tgaggagtat gacgagtata agaggataag agaagagaga aatgggaaat actctataga
2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacgga
2821 agaagacttc tgtgaagagg aagagattaa aatccgtcag agaattttcc gtcccaccag
2881 gaaacaaaga aaggaagaaa gggccacatt ggggctagta acgggttcag aaatcagaaa
2941 gagaaaccct gatgacttca aacccaaagg gaagctgtgg gccgatgaca acagaagtgt
3001 tgactacaat gaaaaactgg actttgaggc ccccccaagc atatggtcta ggatcgtgag
3061 ctttggttct ggctggggct tctgggtatc accaagcctg tttataacat caacccatgt
3121 gatccccgca ggcataacag aagcatttgg agtctccatc aaacaaattc agatccacaa
3181 atcaggtgaa ttttgccggt tcagattccc aaaaccaatt agaccagatg ttacaggaat
3241 gatcttggaa gaaggtgcgc ctgagggtac cgtggcaact gtgctcatca aacgccccac
3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga agattcaagg
3361 ccgcatggtt ggcgggcaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga
3421 tttggggaca acccctggtg actgtggctg cccctacatc tataaaagag gcaacgacta
3481 tatagtcatt ggggtgcata ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac
3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg
3601 ggcacccatt ctgggccctg ggggcgcacc aaaattgagc accaagacca aattttggag
3661 gtcatcgaac acgccccttc caccagggac gtatgagcct gcctacctcg gcggccgtga
3721 tccacgtgtc aagggcgggc cctccttgca gcaggtaatg agagatcagt tgaagccatt
3781 cactgagccc aggggcaaac ctccaagacc aagtgtatta gaagcagcca aacaaaccat
3841 catcaatgtc ctcgaacaaa ccctggatcc tccacaaaaa tggacatacg cacaggcgtg
3901 tgcctcactt gacaaaacca cctccagcgg gaacccccat cacgtccgaa agaatgaatt
3961 ctggaatggt gagaccttta ctggaaaatt ggcagaccaa gcatcaaaag caaatctaat
4021 gtttgaggaa gggaaacata tgacaccagt gtatacagca gcactcaagg acgagctcgt
4081 taagactgag aaaatctatg gaaagattaa gaagagactg ctctggggct ctgacttgtc
4141 caccatggtc cggtgtgcta ggtcatttgg tgggcttatg gacgagatga aggcacactg
4201 catatcactc ccagtccgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga
4261 gaaacattcc agatataagt accattatga tgcagactac tctcgttggg attcaacaca
4321 acagagggca gtgctggcag cagccttgga aatcatggtc agattctctg cagaaccaca
4381 actggcacaa atagtcgctg aggatctgct ggcccctagt gtagtagatg taggagactt
4441 caaaatcaca ataaatgaag ggctcccctc tggtgttcca tgcacttctc aatggaattc
4501 cattgctcac tggctactaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcccctga
4561 cattatacag gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga
4621 cataaaatta gatcctgaac agttaaccgc caaattgaag gagtacggtc tgaaaccaac
4681 ccgcccagac aaaaccgagg gacccctgat catcagtgaa gatttggacg gactcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggttggttt ggtaaactgg accagagctc
4801 cattttgagg cagatgtact ggactagagg gccaaatcat gaagacccca atgagacaat
4861 gataccccat tctcagagac ccatacagct catggcactg cttggtgaag cttccctcca
4921 cgggccctct ttctatagta 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 tcatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaagtaatt ttgtacaagc ccctggtggg gagtttacag
5281 tatcccctag aaatgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctaa
5341 atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggc tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ctgggaagat tatatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttaagcccta gccaggtcac tatgttccct catataatag
5521 tagatgttag acaattggaa cctgtgctga tccccttacc cgatgttagg aataatttct
5581 atcattacaa tcagtcaaat gactccacta ttaagttgat agcaatgttg tacacaccac
5641 ttagggctaa taatgctgga gatgatgttt tcacagtctc gtgccgagtt ctcacgagac
5701 catcccccga ttttgatttc atattcttag taccacccac agttgagtca agaactaaac
5761 cattctccgt tccagtttta actgttgagg agatgaccaa ttcaagattc cccatccctt
5821 tggaaaagtt gttcacaggc cccagcagtg catttgttgt tcaaccacaa aacggcagat
5881 gcacaactga tggcgtgctc ctaggcacca cccaactttc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac atcacaggta gccacaactt cactatgaat ttggcttctc
6001 aaaattggaa caactacgac ccaacagaag aaatcccagc tcccctagga actccagatt
6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc
6181 aatttgaaac tgacacaaac catgattttg aagctaatca aaacacaaag ttcaccccag
6241 tcggtgttat ccaagatggt agcaccaccc accgaaacga accccaacag tgggtgcttc
6301 caagttactc aggcagaaac actcacaatg tacatttggc ccccgctgta gcccccacct
6361 ttccgggtga acaacttctc ttctttagat ctaccatgcc cggatgtagc ggatacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtatttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa cccagacaca ggtagggttt
6541 tgtttgagtg caagcttcac aaatcaggct atgttacagt ggctcacact ggtcaacatg
6601 atttggttat cccccccaat ggttacttta ggtttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgc ggtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc attaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagtaatt tgcaacaggc ttcctttcaa catgataaag agatgctcca
6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgagagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcggcccgc ggggcaatta acgcccccat
7021 gacaaaggct ttggactgga gcgggacaag gtactgggct ccagatgcta gaattacaac
7081 atacaatgca ggccactttt ccacccctca accatcgggg gcactaccag gaagagctaa
7141 ttttagggat gctgtccctg ctcggggacc cgccaccaga ccttctaact cttctactgc
7201 cacttctgtg cattcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg
7261 aaccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa
7321 taggaatttg tctcctttca tgaggggggc ccacaatata tcatttgtca ccccaccatc
7381 tagcagatcc tccagccaag gcacagtctc aaccgtgcct aaagaaattc tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaact gattattttt ctttttcttt agtgtctttt
7561 aa
//