Typing tool
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Typing tool
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Complete norovirus genomes
| MH702273 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..4948
ORF2: 4929..6551
ORF3: 6551..7357
LOCUS MH702273 7357 bp RNA linear VRL 01-JAN-2019
DEFINITION Norovirus GII strain Hu/BT/2012/GII.Pe-GII.4_Sydney_2012/ETR-NV-184
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION MH702273
VERSION MH702273.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7357)
AUTHORS Pham,A.H., Pham,T.T.T., Swierczewski,B.E., Ladaporn,B. and Baker,S.
TITLE The genomics of Norovirus in Thailand
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7357)
AUTHORS Pham,A.H., Pham,T.T.T., Swierczewski,B.E., Ladaporn,B. and Baker,S.
TITLE Direct Submission
JOURNAL Submitted (31-JUL-2018) Enterics, Oxford University Clinical
Research Unit, 764 Vo Van Kiet, Ho Chi Minh, 5 70000, Vietnam
COMMENT ##Assembly-Data-START##
Assembly Method :: velvet v. 1.2.10
Assembly Name :: Norovirus
Coverage :: 326,147 X
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7357
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/BT/2012/GII.Pe-GII.4_Sydney_2012/ETR-NV-184"
/isolation_source="stool specimen"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Bhutan"
/collection_date="04-Dec-2012"
/note="genotype: GII.Pe-GII.4_Sydney_2012"
gene <1..4948
/gene="ORF1"
CDS <1..4948
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="AXQ39936.1"
/translation="IPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPEL
TTVRQPEETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVH
KPPAAISLAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCW
VLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRP
IKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDY
ELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKL
VMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEE
KARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGK
THLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRL
QELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYA
EAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTT
GSLIARASGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQ
LKDVKTMSDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELA
GALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEE
MANKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKR
IREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQKIFRPTRKQRKEE
RASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSG
WGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMIL
EEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMD
LGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTY
CGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQ
LKPFTEPRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHH
MRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKR
LLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYD
ADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGL
PSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPE
KLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQ
MYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMD
FYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..838
/gene="ORF1"
/product="p48"
mat_peptide 839..1936
/gene="ORF1"
/product="NTPase"
mat_peptide 1937..2473
/gene="ORF1"
/product="p22"
mat_peptide 2474..2872
/gene="ORF1"
/product="VPg"
mat_peptide 2873..3415
/gene="ORF1"
/product="Pro"
mat_peptide 3416..4945
/gene="ORF1"
/product="RdRp"
gene 4929..6551
/gene="ORF2"
CDS 4929..6551
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AXQ39934.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDRDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6551..7357
/gene="ORF3"
CDS 6551..7357
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="AXQ39935.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SSVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 aataccaccc agacccccgc gaccacccac accagaattg gtcaaaaaga tccctcctcc
61 cccacccaac ggggaggatg aactagtggt ctcttacagc gccaaagatg gcgtttccgg
121 actgcctgag ctcaccactg tcagacaacc ggaagaaacc aacacggcgt tcagtgtccc
181 cccactcaac caaagggaga gcagggacgc caaggagcca ctaactggaa caatcattga
241 aatgtgggat ggagaaatct accattacgg cctgtacgtg gaacgaggtc ttatacttgg
301 tgtgcacaag ccaccggcag ccattagcct tgccaaggtc gagctagcac cgctctcttt
361 gttctggaga cctgtataca ccccccagta tctcatctct ccagacactc ttaggagatt
421 acatggagag tcattcccct acactgcatt tgacaacaat tgctacgcct tttgttgttg
481 ggtattagac ctaaacgact catggctaag caggagaatg attcagagaa caacaggctt
541 cttcaggccg taccaggatt ggaacaggaa acccctcccc actatggatg attccaaatt
601 aaagaaggta gccaacatat tcttgtgcac tttgtcttca ctattcacca gacccattaa
661 ggacataata gggaagttga aacctcttaa catccttaac attctggcta catgtgattg
721 gaccttcgca ggcatagtgg aatccttaat actcttggca gaactctttg gagttttctg
781 gacaccccca gatgtgtctg cgatgatcgc ccccttgcta ggtgattatg aactgcaagg
841 acctgaggac cttgcagtgg aactggtccc aatagtgatg ggggggatag gtttggtgct
901 aggatttacc aaagagaaaa tcggaaagat gctatcatcc gctgcatcca ctttaagagc
961 ttgtaaagac cttggtgcat acggactgga aatcttaaaa ttggtcatga agtggttctt
1021 cccaaagaaa gaggaagcaa atgaactggc tatggtgaga tccatcgagg atgcagtact
1081 agacctcgag gcaattgaaa acaaccacat gaccacccta ctcaaagaca aagacagctt
1141 ggcaacctac atgagaaccc ttgaccttga ggaggagaaa gccagaaaac tctcaaccaa
1201 atctgcttca cccgatattg tgggcacaat caactctctt ctggcaagaa tcgctgctgc
1261 acgctcccta gtgcatcggg cgaaagaaga gctctccagc aggccgagac ctgtcgttgt
1321 gatgatatcg ggaagaccag ggatagggaa aactcacctt gccagggagc tggccaagaa
1381 gatcgcggcc tccctcacag gggaccagcg tgtgggtctt atcccacgca atggtgtcga
1441 ccactgggac gcatacaagg gcgaaagagt tgtcctatgg gacgactatg gaatgagcaa
1501 ccccatccat gatgccctca ggttgcagga gcttgctgac acttgccccc tcacgctaaa
1561 ttgtgacaga attgagaaca aagggaaagt ctttgacagt gatgccataa ttatcaccac
1621 caatctggcc aacccagcac cactggatta tgtcaacttt gaagcgtgct cgagacgcat
1681 tgatttcctc gtgtacgcag aagcccctga ggtggagaag gcaaagcgcg acttcccagg
1741 tcaacctgac atgtggaaga acgctttcag tcctgacttc tcacacataa aattgtcatt
1801 ggctccacag ggtggttttg acaagaacgg caacaccccg catggaaaag gggtcatgaa
1861 gaccctcacc actggctccc tcatcgcccg agcatcaggg ttactccatg agaggctaga
1921 tgaatatgaa ctgcaaggcc cagccctcac cactttcaac tttgaccgca acaagatact
1981 tgcttttaga cagcttgctg ctgaaaacaa gtatgggctg atggacacaa tgagagttgg
2041 aaaacagctc aaggatgtca agaccatgtc agacctcaaa caagcactca agaacatcgc
2101 gatcaagaag tgccagatag tgtacaatgg tggcacctac acacttgagg ctgatggcaa
2161 gggtagtgtg aaagttgaca aagtgcaaag tgccactgtg cagaccaaca atgaactagc
2221 cggtgcccta caccacctaa ggtgcgctag aatcagatac tatgttaagt gcgtccagga
2281 ggcactgtat tccatcatcc aaatcgctgg ggctgcattc gtcaccacgc gcatcgctaa
2341 gcgcatgaat atacagaatc tctggtccaa gccacaggtg gaagacacag aagagatggc
2401 caacaaagat ggttgcctaa aacccaaaga tgatgaagag tttgtcgtct catccgacga
2461 catcaaaact gagggcaaga aagggaagaa caagtccggc cgtggcaaga agcacacagc
2521 cttttcaagt aaagggctca gtgatgagga gtacgatgag tacaagagaa tcagagaaga
2581 aaggaatggt aagtactcca tagaagagta ccttcaggac agagacaggt actacgagga
2641 ggtggccatt gccagggcaa ccgaagagga cttctgtgaa gaagaagagg ccaaaatccg
2701 gcagaaaatt ttcagaccaa caaggaaaca acgcaaagaa gagagggcct ctctcggctt
2761 ggtcacaggc tctgaaatca ggaagagaaa cccagaagac ttcaaaccca agggaaagct
2821 gtgggctgat gatgacagaa gtgttgacta caatgagaaa ctcaactttg aggccccacc
2881 aagcatctgg tcgcggatag tcaactttgg ttcaggctgg ggcttctggg tctcccccag
2941 tctgtttata acatcaaccc atgtcatacc ccaaggtgca aaagagttct tcggagtccc
3001 tatcaagcaa atccagatac acaagtcagg tgaattctgc cggttgagat tcccaaagcc
3061 aatcagaact gatgtgacgg gcatgattct agaagaaggt gcgcccgagg ggaccgtggc
3121 cacactgctc atcaagagac caactggaga gctcatgcct ctggcagcca gaatggggac
3181 ccatgcaacc atgaaaattc aggggcgcac agttggaggg caaatgggta tgctcctgac
3241 aggatccaac gccaagagta tggacctagg cacaacacca ggcgactgcg gctgccccta
3301 catctacaag agggggaatg actacgtggt cataggagtc catacggccg ctgcccgtgg
3361 aggaaacact gtcatatgtg ccacccaggg gagtgaggga gaagccacac ttgaaggagg
3421 tgacagtaaa gggacatact gtggcgcacc aatcttgggc ccagggagcg ctccgaagct
3481 cagtaccaag actaagtttt ggagatcatc cacaacacca ctcccacctg gcacctacga
3541 accagcctac ctcggtggca aagaccctag agtcaaaggt ggcccttcat tgcaacaagt
3601 tatgagggac cagctgaagc cattcacaga acccagaggc aaaccaccaa gaccaaatgt
3661 gttggaagct gccaagaaaa ccatcatcaa tgtccttgag caaacaattg atccacccca
3721 aaaatggtca tttgcgcaag cttgcgcatc ccttgacaaa accacctcca gcggccaccc
3781 gcaccacatg cggaaaaacg actgttggaa tggggagtcc ttcacaggaa aattggctga
3841 tcaagcctcc aaggccaacc taatgtttga agagggaaag aacatgactc cagtctacac
3901 aggtgcactt aaagatgagt tggtaaagac cgataaagtt tatggtaagg tcaagaagag
3961 gcttctgtgg ggttcagatc tggcgaccat gatacggtgc gcccgagctt ttggaggcct
4021 tatggatgaa ctcaaggcac actgtgtcac acttcctgtc agagttggta tgaacatgaa
4081 tgaggatggc cccatcatct ttgagaagca ctccagatat agatatcact atgatgctga
4141 ttattcccgg tgggactcaa cacaacaaag ggatgtgcta gcagcagcac tagaaatcat
4201 ggttaagttc tctccagaac cacacctggc ccagatagtt gcagaagacc tcctctcccc
4261 tagcgtgatg gatgtaggtg actttcaaat atcaataagt gagggtctcc cctctggggt
4321 accttgtacc tcccagtgga attccatcgc ccactggctc ctcactctgt gtgcactctc
4381 tgaagtcacg gacctgtccc ctgatatcat tcaggccaac tcccttttct ccttctatgg
4441 tgatgatgag attgtaagca cagacataaa gttggaccca gagaagctga cagcaaaact
4501 caaggagtac gggctgaaac caacccgccc cgacaaaact gaaggacccc ttgttatctc
4561 tgaagacctg gatggcctga cattcctccg gagaactgtg acccgtgatc cagctggctg
4621 gtttggaaaa ttggaacaaa gttcaattct caggcaaatg tactggacca ggggtcccaa
4681 ccatgaagat ccatttgaaa caatgatacc acactcccaa agacccatac aattgatgtc
4741 cttgctgggc gaggctgcac tccacggccc ggcattctat agcaaaatta gcaaattagt
4801 tattgcagag ttgaaggaag gtggcatgga tttttacgta cccagacaag agccaatgtt
4861 cagatggatg agattctcag atctgagcac gtgggagggc gatcgcaatc tggctcccag
4921 ttttgtgaat gaagatggcg tcgagtgacg ccaacccatc tgatgggtcc gcagccaacc
4981 tcgtcccaga ggtcaacaat gaggttatgg ctctggagcc cgttgttggt gccgccattg
5041 cggcacctgt agcgggccaa caaaatgtaa ttgacccctg gattagaaat aattttgtac
5101 aagcccctgg tggagagttt acagtatccc ctagaaacgc tccaggtgaa atactatgga
5161 gcgcgccctt gggccctgat ctaaatccct acctatccca tttggccaga atgtacaatg
5221 gttatgcagg tggttttgaa gtgcaggtaa ttctcgcggg gaacgcgttc accgccggga
5281 aggtcatatt tgcagcagtc ccaccaaatt ttccaactga aggcttgagc cccagccagg
5341 tcactatgtt cccccatata gtagtagatg ttaggcaact agaacctgtg ttgattccct
5401 tacccgatgt taggaataat ttctatcatt acaatcaatc aaatgacccc accattaagt
5461 tgatagcaat gttgtataca ccacttaggg ctaataatgc tggggatgat gtcttcacag
5521 tttcttgccg agttctcacg agaccatccc ccgattttga tttcatattt ctagtgccac
5581 ccacagttga gtcaagaact aaaccattct ctgtcccagt tttaactgtt gaggagatga
5641 ccaattcaag attccccatc cctttggaaa agttgttcac gggtcccagc agtgcctttg
5701 ttgtccaacc acaaaacggt aggtgcacga ctgatggcgt gctcctaggc accacccaac
5761 tgtctcctgt caacatctgc accttcagag gagatgtcac ccatatcaca ggtagtcgta
5821 actacacaat gaatttggct tctcaaaatt ggagcaatta tgacccaaca gaagaaatcc
5881 cagcccctct aggaactcca gattttgtgg ggaagattca aggcgtgctc acccaaacca
5941 caaggacaga tggctcaaca cgcggccaca aagccacagt gtacactggg agcgccgact
6001 ttgctccaaa actgggtaga gttcaatttg aaactgacac agaccgtgat tttgaagcta
6061 accaaaacac aaagttcacc ccagttggtg tcatccaaga cggtagcacc acccaccgaa
6121 atgaacccca acagtgggtg cttccaagtt actcaggcag aaatactcct aatgtgcatc
6181 tggcccccgc tgtagccccc acttttccgg gtgagcaact tctcttcttc agatccacca
6241 tgcccggatg cagcgggtac cccaacatgg acttggactg tctgctcccc caggaatggg
6301 tgcagtactt ctaccaagag gcagccccag cacaatctga tgtggctctg ctaagatttg
6361 tgaatccaga cacaggtagg gttttgtttg agtgtaagct tcataaatca ggctatgtta
6421 cagtggctca cactggccaa catgatttgg ttatcccccc caatggttat tttaggtttg
6481 attcctgggt caaccagttt tacacgcttg cccccatggg aaatggaacg gggcgtagac
6541 gtgcactata atggctggag ctttctttgc tggattggca tctgatgtcc ttggctctgg
6601 acttggttcc cttatcaatg ctggggctgg ggccatcaac caaaaagttg agtttgaaaa
6661 taacagaaaa ttgcaacaag catccttcca atttagcagc aatctacaac aggcttcctt
6721 tcaacatgac aaagagatgc tccaagcaca aattgaggcc accaaaaggc tacaacagga
6781 aatgatgaaa gttaagcagg caatgctcct agagggtggg ttctctgaga cagatgcagc
6841 ccgcggggca atcaacgccc ccatgacaaa agctttggac tggagcggga caaggtactg
6901 ggctcccgat gctaggacta caacatacaa tgcaggccgc ttttctaccc ctcaaccatc
6961 gggggcactg ccaggaagag ctaatcttag ggatgctgtc cctgctcggg gttcctccag
7021 taagtcttct aattcttcta ctgctacttc tgtgtactca aatcaaacta cttcaacgag
7081 gcttggttct acagctggtt ctggcaccag tgtctcgagc ttcccgtcaa ctgcaaggac
7141 taggagctgg gttgaggatc aaagtaggaa tttgtcacct ttcatgaggg gggcccacaa
7201 catatcgtct gtcaccccac catctagcag atcctctagc caaggcacag tctcaaccgt
7261 gcctaaagag attttggact cctggactgg cgctttcaac acgcgcaggc agccactctt
7321 cgctcacatt cgtaagcgag gggagtcacg ggcgtaa
//