Typing tool
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Typing tool
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Complete norovirus genomes
| MH188080 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..4692
ORF2: 4673..6295
ORF3: 6295..7044
LOCUS MH188080 7044 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus sp. clone NSP_VP1_VP2/413-7456/ST5/AU/2017 non-structural
polyprotein gene, partial cds; VP1 gene, complete cds; and VP2
gene, partial cds.
ACCESSION MH188080
VERSION MH188080.1
KEYWORDS .
SOURCE Norovirus sp.
ORGANISM Norovirus sp.
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus.
REFERENCE 1 (bases 1 to 7044)
AUTHORS Vibin,J., Chamings,A., Collier,F., Klaassen,M., Nelson,T.M. and
Alexandersen,S.
TITLE Metagenomics detection and characterisation of viruses in faecal
samples from Australian wild birds
JOURNAL Sci Rep 8 (1), 8686 (2018)
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7044)
AUTHORS Vibin,J., Chamings,A., Collier,F., Klaassen,M., Nelson,T.M. and
Alexandersen,S.
TITLE Direct Submission
JOURNAL Submitted (10-APR-2018) School of Medicine, Geelong Centre for
Emerging Infectious Diseases, 285 Ryrie Street, Geelong, Victoria
3220, Australia
COMMENT ##Assembly-Data-START##
Assembly Method :: Ion Torrent Suite v. 5.6.0; Integrative
Genomics Viewer v. 2.3.93; MEGA v. 7.0.26
Assembly Name :: ST4-ST5-ST6-Aug 2017
Coverage :: 2-189
Sequencing Technology :: IonTorrent
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7044
/organism="Norovirus sp."
/mol_type="genomic RNA"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1938392"
/clone="NSP_VP1_VP2/413-7456/ST5/AU/2017"
/geo_loc_name="Australia"
/collection_date="Jun-2017"
CDS <1..4692
/note="ORF1"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="AWR88306.1"
/translation="IYHYGLYVERGLVLGVHKPPAAISLAKVELAPLSLYWRPVYTPQ
YLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDW
NRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIRPLNILNILASCDWTFAGV
VESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGLVLGFT
KEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAIVRSIEDAVLD
LEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAA
ARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGDQRVGLIPRN
GVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDV
IIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSSDF
SHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEFELQGPALTT
FNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTMPELKQALKNVSIKKCQIVYS
GCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQ
IAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCPKPKDDEEFVISSDDIKTEG
KKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDKYYEEVAI
ARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTGSEIRKRNPDDFKPKGKLW
ADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGV
PIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPTGELMPLAAR
MGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHT
AAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPTLSTKTKFWRSSTAP
LPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRGKPPKPSVLEAAKKTIINV
LEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMF
EEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAH
CVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQRAVLAAALEIMVKFSP
EPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVT
NLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYGLKPTRPDKTEGPLAISE
DLNGLTFLRRTITRDPAGWFGKLEQSSILRQMYWTRGPNHGDPSETMIPHSQRPIQLM
SLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNL
APSFVNEDGVE"
CDS 4673..6295
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AWR88307.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSIPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTSNDFEASQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKAGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
CDS 6295..>7044
/note="minor structural protein"
/codon_start=1
/product="VP2"
/protein_id="AWR88308.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQSPGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPPSRSSSQGTVSTVPKEILDSWTGAFN"
ORIGIN
1 atctaccatt atggcctgta tgtggaacga ggtcttgtgc taggtgtgca caaaccgcca
61 gctgccatca gccttgctaa ggttgagctg gcaccactct ccttgtactg gagacctgtg
121 tacactcctc agtacctcat ctctccagac actctcaaga aattgtccgg agagacgttc
181 ccctacacag cctttgataa taactgctat gccttttgtt gctgggttct ggacctaaat
241 gactcgtggc tgagtagaag aatgatccag agaacaactg gtttctttag gccctatcag
301 gactggaata ggaaacccct tcctactatg gatgactcca aaataaagaa ggtagctaac
361 atatttctgt gtgccctgtc ctcgctattc accagaccca taaaagatat aatagggaag
421 ataaggcctc ttaatatcct caacatcttg gcctcatgtg actggacctt tgcgggtgta
481 gtggagtccc tgatactctt ggcagaactc tttggagttt tctggacacc cccagatgtg
541 tctgcgatga ttgccccctt acttggtgac tatgagctac aaggacctga ggaccttgca
601 gtagagctcg tccccgtggt gatgggggga attggtttgg tgctaggatt caccaaagag
661 aaaattggaa aaatgttgtc atctgctgcg tccactttga gagcttgcaa agaccttggt
721 gcatatgggc tagagatcct aaagttagtc atgaagtggt tcttcccaaa gaaggaggag
781 gcaaatgaac tggctatagt gaggtccatc gaggacgcag tcctggatct cgaggcaatt
841 gaaaacaatc atatgaccac cttgcttaaa gataaagaca gtctggcaac ctacatgaga
901 acacttgacc ttgaagagga gaaagccaga aaactctcaa ccaagtctgc ctcacccgac
961 atcgtgggta caatcaacgc cctcctggcg agaatcgctg ccgcacgctc tctggtgcat
1021 cgagcgaaag aggagctttc cagcagacca agacctgtgg tgttgatgat atctggcagg
1081 ccaggaatag ggaagaccca ccttgctagg gaagtggcta agagaatcgc agcctccctt
1141 acaggagatc agcgtgtggg cctcatccca cgcaatggtg tcgaccattg ggatgcgtac
1201 aagggggaga gggtcgtcct gtgggacgat tatggaatga gcaaccctat tcacgatgcc
1261 ctcaggctgc aagaactcgc tgacacttgt cccctcactc tgaactgtga caggattgaa
1321 aataaaggaa aggtttttga cagcgatgtc atcattatca ccactaatct ggccaaccca
1381 gcaccactgg actatgtcaa ctttgaagca tgctcgaggc gcattgactt cctcgtgtat
1441 gcagaagccc ctgaagttga aaaggcgaag cgtgacttcc caggccagcc tgacatgtgg
1501 aagaacgctt tcagttctga tttctcacac ataaaactag cactggcccc acagggtggt
1561 ttcgataaga acgggaacac cccacacgga aagggcgtca tgaagaccct caccactggc
1621 tcccttattg cccgagcatc agggctgctc catgagaggc tggatgaatt tgagctgcag
1681 ggcccagctc tcaccacctt caacttcgat cgcaataaag tgcttgcctt tagacagctt
1741 gctgctgaaa acaaatatgg attgatggac acaatgaggg ttgggaaaca gctcaaggat
1801 gtcagaacca tgccagaact caaacaggca ctcaaaaatg tctcaatcaa gaagtgccaa
1861 atagtgtata gtggttgcac ttacatgctt gagtctgatg gcaagggcaa tgtgaaggtt
1921 gacagaatcc aaagcgccgc cgtgcagacc aacaatgagc tggctggtgc cctgcaccac
1981 ttgaggtgcg ccagaatcag atactatgtc aagtgtgtcc aggaagccct gtattccatc
2041 atccaaatcg ctggggctgc atttgtcacc acgcgcattg ccaagcgcat gaatatacaa
2101 gacctatggt ccaagccaca agtggaaaac acagaggaga ctaccagcaa ggacgggtgc
2161 ccaaagccta aggatgatga ggagttcgtc atttcatccg acgacatcaa aactgagggc
2221 aagaaaggga agaacaagac tggccgtggc aagaagcaca cagcattttc aagcaaaggc
2281 ctcagtgatg aagagtatga tgaatacaag aggattagag aagagaggaa tggcaagtac
2341 tctatagaag agtaccttca ggacagggac aaatactatg aggaggtggc tattgccagg
2401 gcgaccgagg aagacttctg tgaagaggag gaggccaaga tccggcaaag gatctttagg
2461 ccaacaagga aacaacgcaa ggaggaaaga gtctctcttg gtctggtcac aggctctgaa
2521 attaggaaaa gaaacccaga tgacttcaaa cccaagggaa aattgtgggc tgacgatgac
2581 aggagtgtgg actacaatga gaaactcagc tttgaggccc caccaagcat ttggtcgaga
2641 atagtcaact ttggttcagg ctggggattc tgggtctctc ccagtttgtt cataacatca
2701 acccatgtca taccccaggg cgcaaaggag ttctttggag tccccatcaa acaaatacag
2761 gtacacaagt caggcgagtt ctgtcgcttg agatttccta aaccaatcag gactgatgta
2821 acgggcatga tcttggaaga aggcgcacct gagggcaccg tggtcacact actcatcaaa
2881 aggcccactg gggaactcat gcccctagca gctaggatgg ggacccatgc gaccatgaag
2941 atccaagggc gcactgttgg aggccagatg ggcatgcttc tgacaggatc caacgccaag
3001 agcatggacc tgggtactac accaggtgat tgtggctgcc cctacatcta caagagaggc
3061 aatgactatg tggtcattgg agtccacacg gctgccgcac gtgggggaaa cactgtcata
3121 tgtgccaccc aagggagtga aggggaggct acacttgagg gtggtgacaa caaggggaca
3181 tactgtggtg caccaatcct gggtccaggg agtgccccaa cacttagcac caagaccaaa
3241 ttctggagat cgtccacagc accacttcca cctggcacct atgaaccagc ctatcttggt
3301 ggcaaggacc ctagagtcaa gggtggccct tcactgcagc aagtcatgag ggaacagttg
3361 aagccattca cagagcccag gggcaagcca ccaaaaccaa gtgtgttaga agctgccaag
3421 aagaccatca ttaatgtcct tgaacaaaca attgacccac ctgagaaatg gtcgttcgca
3481 caagcttgcg cgtcccttga caagaccact tccagtggcc atccgcacca tatgcggaaa
3541 aacgactgct ggaacgggga atcctttacg ggcaagctgg cagaccaagc ttccaaggcc
3601 aacctgatgt ttgaagaagg gaagaacatg accccagtct acacagctgc gctcaaggat
3661 gagttagtta aaactgacaa aatttatggt aagatcaaga agaggcttct ctggggctcg
3721 gatttggcaa ccatgattcg gtgtgctcga gcattcggag gcctaatgga tgaactcaaa
3781 gcgcactgtg tcacactccc cattagagtt ggcatgaata tgaatgagga tggccccatc
3841 atcttcgaga ggcattccag gtacacgtac cactatgatg ctgactactc tcggtgggat
3901 tcaacacaac agagagccgt gttggcagca gctctagaaa tcatggttaa attctcccca
3961 gaaccacatt tggctcaggt ggtcgcggaa gaccttcttt cccccagcgt ggtggacgtg
4021 ggcgacttca caatatcaat caatgagggt cttccctctg gggtgccctg cacctcccaa
4081 tggaactcca ttgcccactg gctcctcacc ctctgtgcgc tctctgaagt cacaaacctg
4141 tcccctgata ccatacaggc taattccctc ttctcttttt atggtgatga tgaaattgtt
4201 agcacagaca taaaattgga cccagagaaa ttgacagcaa aactcagaga gtatgggtta
4261 aaaccaaccc gccctgacaa aactgaagga ccccttgcca tctctgaaga cctgaatggt
4321 ctgactttcc tgcggagaac tataacccgc gacccagctg gttggtttgg aaaactggag
4381 cagagttcaa tactcaggca aatgtactgg actaggggtc ccaaccatgg agacccatct
4441 gaaacaatga ttccacactc ccaaagaccc atacagttga tgtccctact gggggaggcc
4501 gctctccacg gcccagcatt ttacagcaaa attagcaaat tggtcattgc agagctaaaa
4561 gaaggtggca tggattttta cgtgcccaga caagagccaa tgttcagatg gatgagattc
4621 tcagatctga gcacgtggga gggcgatcgc aatctggctc ccagttttgt gaatgaagat
4681 ggcgtcgagt gacgccaacc catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa
4741 caatgaggtt atggctctgg agcccgttgt tggtgccgct attgcggcac ctgtagcggg
4801 ccaacaaaat gtaattgacc cctggattag gaataatttt gtacaagccc ctggtggaga
4861 gtttacagta tcccctagaa acgctccagg tgaaatacta tggagtgcac ccttaggccc
4921 tgatctaaat ccctacctat cccatttggc cagaatgtac aatggttatg caggtggttt
4981 tgaagtgcag gtaattctcg cggggaacgc gttcaccgcc gggaaggtca tatttgcagc
5041 agtcccacca aatttcccaa ctgaaggctt aagccccagc caggtcacta tgttccccca
5101 catagtagta gatgttaggc aactagaacc tgtgttgatt cccttacccg atgttaggaa
5161 caatttctac cattataacc aatcaaatga ccccaccatt aagttgatag caatgttgta
5221 tacaccactt agggctaata atgctgggga cgatgtcttc acagtttctt gccgagttct
5281 tacaagacca tcccccgatt ttgatttcat atttttagta ccacccacag ttgagtcaag
5341 aactaaacca ttctctatcc cagttttaac agttgaggag atgaccaatt caagattccc
5401 cattcctttg gaaaagttgt tcacgggtcc cagcagcgcc tttgttgttc aaccacaaaa
5461 cggcagatgc acgactgatg gcgtgctcct aggcaccacc caactgtctc ctgtaaacat
5521 ctgcaccttc agaggggacg tcacccacat cacaggcagt cacaactaca caatgaattt
5581 ggcttctcaa aattggaaca attacgatcc aacagaagaa atcccagccc ctctaggaac
5641 cccagacttt gtggggaaga ttcaaggtat gctcacccaa accacaaggg cagatggctc
5701 aacacgcggc cacaaggcta cagtgtacac tgggagcgcc gacttcgctc ctaaactggg
5761 tagagttcaa tttgaaactg acacaagcaa tgattttgaa gctagccaaa acacaaagtt
5821 caccccagtc ggtgtcatcc aagacggtag caccacccac cgaaatgaac cccaacagtg
5881 ggtgctccca agttactcag gcagaaatac tcataatgtg catctggccc ccgctgtggc
5941 ccccactttc ccgggtgagc aacttctctt cttcagatcc accatgcccg gatgcagcgg
6001 gtaccctaac atggatttgg actgtctact ccctcaggaa tgggtacagc acttctacca
6061 agaggcagcc ccagcacaat ctgatgtggc tctgctaaga tttgtaaatc cagacacagg
6121 tagggttttg tttgagtgca agctccataa agcaggctat gtcacagtgg ctcacactgg
6181 ccaacacgat ttggtcatcc cccccaatgg ttattttagg tttgattctt gggtcaacca
6241 gttctacacg cttgccccca tgggaaatgg aacggggcgt agacgtgtag tataatggct
6301 ggagctttct ttgctggatt ggcatctgat gtccttggct ctggacttgg ttcccttatc
6361 aatgctgggg ctggggccat caaccaaaaa gttgagtttg aaaacaacag aaaattgcaa
6421 caagcatcat tccaatttag tagcaatctg caacaggctt cctttcaaca tgataaagag
6481 atgctccaag cacaaattga ggctaccaaa aagctacaac aggaaatgat gaaagttaag
6541 caggcaatgc tcctagaggg tggattctct gagacagatg cagcccgcgg ggcaattaac
6601 gcccccatga caaaagtttt ggactggagc gggaccaggt actgggctcc cgatgctaga
6661 actacaacat acaatgcagg ccgcttttcc acccctcaat caccaggggc actgccagga
6721 agagctaatc ttagggatgc tgtccctgct cggggttcct ccagcaaatc atctaactct
6781 tctactgcta cttctgtgta ttcaaatcaa actacttcaa cgagacttgg ttctacagct
6841 ggttctggta ccagtgtctc gagtctcccg tcaactgcaa ggactaggag ctgggttgag
6901 gatcaaagca ggaatttatc acctttcatg aggggggccc acaacatatc gtttgtcacc
6961 ccaccaccta gcagatcctc tagccaaggc acagtctcaa ccgtgcctaa agagattttg
7021 gactcctgga ctggcgcttt caac
//