Typing tool
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Typing tool
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Complete norovirus genomes
| OP727606 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 1..5092
ORF2: 5073..6695
ORF3: 6695..7501
LOCUS OP727606 7543 bp RNA linear VRL 01-NOV-2022
DEFINITION Norovirus GII isolate OBS2 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION OP727606
VERSION OP727606.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7543)
AUTHORS Kelly,D., Allen,D.J. and Iturriza-Gomara,M.
TITLE Direct Submission
JOURNAL Submitted (27-OCT-2022) Clinical Infection, Microbiology and
Immunity, Institute of Infection and Global Health, 8 West Derby
Street, Liverpool, Please select. L697BE, United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.15.4
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7543
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="OBS2"
/isolation_source="stool sample"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="Jan-2017"
/note="genotype: GII.P4/GII.4"
gene <1..5092
/gene="ORF1"
CDS <1..5092
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="UYR40568.1"
/translation="ASNDASAAAVANSNNDTEKSSSDGVLSSMAVTFKRALGARPKQP
PPREKSQRPPRPPTPELIKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPEESN
TAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAK
VELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWLS
RRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIRP
LNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV
ELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE
EANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA
SPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKR
IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT
LNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKR
DFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKSLTTGSLIARASGL
LHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTMPEL
KQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSATVQTNNELAGALHHLRCAR
IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCPRP
KDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTGS
EIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLF
ITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVV
TLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC
PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGS
APTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRGK
PPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE
SFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATM
IRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQ
QRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYG
LKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHG
DPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..982
/gene="ORF1"
/product="p48"
mat_peptide 983..2080
/gene="ORF1"
/product="NTPase"
mat_peptide 2081..2617
/gene="ORF1"
/product="p22"
mat_peptide 2618..3016
/gene="ORF1"
/product="VPg"
mat_peptide 3017..3559
/gene="ORF1"
/product="Pro"
mat_peptide 3560..5089
/gene="ORF1"
/product="RdRp"
gene 5073..6695
/gene="ORF2"
CDS 5073..6695
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UYR40569.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGGVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRVV"
gene 6695..7501
/gene="ORF3"
CDS 6695..7501
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UYR40570.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSF
NSSTAISVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ggcgtctaac gacgcttccg ctgccgctgt tgctaacagc aacaacgaca ccgaaaaatc
61 ttcaagtgac ggagtgcttt ctagcatggc tgtcactttt aaacgagccc tcggggcgcg
121 gcctaaacag cctcccccga gggaaaaatc acaaagaccc ccacgaccac ccacaccaga
181 actgattaaa aatattcccc cccccccacc caacggagag gatgaaatag tggtgtctta
241 tagtgtcaag gatggtgttt ccggcttgcc tgacctttcc accgtcaggc agccggaaga
301 atccaacacg gccttcagtg tccctccact caatcagagg gagaatagag atgctaagga
361 accactcact ggaacaattc tggaaatgtg ggacggggag atctaccatt atggcctgta
421 tgtggagcga ggtcttgtac taggcgtgca caaaccgcca gctgccatca gcctcgctaa
481 ggttgagtta gcaccactct ccttgtactg gagacctgtg tacactcctc agtacctcat
541 ctctccagac actctcaaga aattgtccgg agagacgttc ccctacacag cctttgacaa
601 caactgctat gccttttgtt gctgggtcct ggacctaaat gactcgtggc tgagcaggag
661 aatgatccag agaacaactg gtttcttcag gccctaccaa gactggaata ggaaacccct
721 tcccactatg gatgactcca aaataaagaa ggtggccaac atatttctgt gtgctctgtc
781 ctcgctattc accaggccca taaaagatat aatagggaag ataaggcctc ttaacatcct
841 caacatctta gcctcatgtg attggacctt tgcgggtata gtggagtccc tgatactctt
901 ggcagaactc tttggagttt tctggacacc cccagatgtg tctgcgatga ttgccccctt
961 acttggtgat tacgagctac aaggacctga ggaccttgca gtggagctcg tccccgtggt
1021 gatgggggga attggtttgg tgctaggatt caccaaagag aagattggga agatgttgtc
1081 atcagctgcg tccaccttaa gagcttgcaa agaccttggt gcatatgggc tagagatcct
1141 aaagttagtc atgaagtggt tcttcccgaa gaaggaggag gcaaatgagc tggctatagt
1201 gaggtccatc gaggatgcag tcctggatct cgaagcaatt gaaaacaatc atatgaccac
1261 cttgcttaaa gataaagaca gtctggcaac ctacatgaga acacttgacc ttgaagagga
1321 gaaagccagg aaactctcaa ccaaatctgc ctcacccgac atcgtgggca caatcaacgc
1381 tctcctggcg agaatcgctg ccgcacgttc tctggtgcat cgagcgaagg aggagctttc
1441 cagcagacca agacctgtgg tgttgatgat atcaggcagg ccaggaatag ggaagactca
1501 cctcgctagg gaagtggcta agagaatcgc agcctccctt acaggagacc aacgtgttgg
1561 tctcatccca cgcaatggcg tcgaccattg ggatgcgtac aagggggaga gggtcgtcct
1621 atgggacgat tatggaatga gcaaccctat tcacgatgcc ctcaggctgc aagaactcgc
1681 tgacacttgc cccctcactc tgaactgtga caggattgaa aataaaggaa aggtctttga
1741 cagcgatgtc atcattatca ccaccaatct ggccaaccca gccccactgg actatgtcaa
1801 ctttgaagca tgctcgaggc gcattgactt cctcgtgtat gcagaagccc ctgatgtcga
1861 aaaggcgaag cgtgacttcc caggccagcc tgacatgtgg aagaacgctt tcagttctga
1921 tttctcacac ataaaactag cactggcccc acagggtggt ttcgacaaga acgggaacac
1981 cccacacgga aagggcgtca tgaagtctct caccactggc tcccttattg cccgggcatc
2041 agggctactc catgagaggt tagatgaatt tgaactgcag ggcccagctc tcaccacctt
2101 caatttcgat cgcaataaag tgcttgcctt tagacagctt gctgctgaaa ataaatatgg
2161 attgttggac acaatgaggg ttgggaaaca gctcaaggat gtcaaaacca tgccagaact
2221 caaacaagca ctcaagaatg tctcaatcaa gaagtgtcaa atagtgtata gtggttgcac
2281 ctacatgctt gagtctgatg gcaagggcaa tgtgaaagtt gacaggatcc aaagcgccac
2341 cgtgcagacc aacaatgagc tggctggtgc cctgcaccac ttgaggtgcg ccagaatcag
2401 atactatgtc aagtgtgtcc aggaagccct gtattccatc attcaaattg ctggggctgc
2461 atttgtcacc acgcgcattg ccaagcgcat gaacatacaa gacctatggt ccaagccaca
2521 agtggaaaac acagaggaga ctaccagcaa ggacgggtgc ccaagaccca aggatgatga
2581 ggagtttgtc atttcgtccg acgacatcaa aactgagggc aagaaaggga agaacaagac
2641 tggccgtggc aagaagcaca cagcattttc aagcaaaggc ctcagtgatg aagagtacga
2701 tgaatacaag aggatcagag aagaaaggaa tggcaagtac tctatagaag agtaccttca
2761 ggacagggac aaatactatg aagaggtggc cattgccaga gcgactgagg aagacttctg
2821 tgaagaggag gaagccaaga tccgacaaag gatctttagg ccaacaagga aacaacgcaa
2881 ggaggaaaga gtctctctcg gtttggtcac aggttctgaa attaggaaaa gaaacccaga
2941 tgacttcaaa cccaagggga aattgtgggc tgacgatgac aggagtgtgg actacaatga
3001 gaaactcagt tttgaggccc cgccaagcat ttggtcaaga atagtcaact ttggttcagg
3061 ctggggattc tgggtctccc ccagcttgtt cataacatca acccatgtta taccccaggg
3121 cgcaaaggag ttctttggag tccccatcaa acaaatacag gtacacaagt caggcgagtt
3181 ctgtcgcttg agattcccta aaccaattag gactgatgtg acgggtatga tcttagaaga
3241 aggcgcacct gagggcaccg tggttacact actcatcaaa aggtccactg gggaacttat
3301 gcccctagca gctaggatgg ggacccatgc gaccatgaag atccaagggc gcactgttgg
3361 gggccagatg ggcatgcttc tgacaggatc caacgccaag agtatggacc tgggtaccac
3421 accaggtgat tgtggctgcc cctacatcta caagagaggt aatgactatg tggtcattgg
3481 agtccacacg gctgccgcac gtggggggaa cactgtcata tgtgccaccc aggggagtga
3541 aggagaggct acacttgagg gtggtgacaa caaggggaca tactgtggtg caccaatcct
3601 aggcccaggg agtgccccaa cacttagcac caagaccaaa ttctggaggt cgtccacagc
3661 atcactccca cctggcacct atgaaccagc ctatcttggt ggcaaggacc ctagagttaa
3721 gggtggccct tcactgcagc aagtcatgag ggaacagttg aagccattca cagagcccag
3781 gggtaagcca ccaaagccaa gtgtgttaga agctgccaag aaaaccatca ttaatgtcct
3841 tgagcaaaca attgatccac ctgagaaatg gtcgttcgca caagcttgcg cgtctcttga
3901 caagaccact tccagtggtc atccgcacca catgcggaaa aacgactgct ggaacgggga
3961 gtccttcaca ggcaagctgg cagaccaggc ttctaaggcc aacctgatgt ttgaagaagg
4021 gaagaacatg accccagtct acacagctgc gctcaaggat gagttagtta aaactgacaa
4081 aatttatggt aagatcaaga agaggcttct ttggggctcg gacttggcga ccatgatccg
4141 gtgtgctcga gcattcggag gcctaatgga tgaactcaaa gcgcactgtg tcacacttcc
4201 cattagagtt ggcatgaata tgaatgagga tggccccatc atcttcgaga ggcattccag
4261 gtacacgtac cactatgatg ctgattactc tcgatgggat tcaacacaac agagagccgt
4321 gttggcagca gccctagaaa tcatggtaaa attctcccca gaaccacatt tggctcaggt
4381 agttgctgaa gaccttcttt ctcctagcgt ggtggacgtg ggcgacttca caatatcaat
4441 caacgagggt cttccctctg gggtgccttg cacctcccaa tggaactcca tcgcccactg
4501 gcttctcact ctctgtgcgc tctccgaagt cacaaacctg tctcctgata ccatacaggc
4561 taattctctc ttctcttttt atggtgatga tgaaattgtt agcacagaca taaaattgga
4621 cccagagaaa ttgacagcaa agctcagaga atatgggtta aagccaaccc gccctgacaa
4681 aactgaaggg ccccttgtca tctctgaaga cctgaatggt ctaactttcc tgcggagaac
4741 tgtgacccgc gacccagctg gttggtttgg aaaactggag cagagttcaa tactcaggca
4801 aatgtactgg actaggggtc ccaaccatgg agacccatcc gaaacaatga ttccacactc
4861 ccaaagaccc atacaattga tgtccctact gggggaggcc gctctccacg gcccagcatt
4921 ttacagtaaa attagcaaat tggtcattgc agagctaaaa gaaggtggta tggattttta
4981 cgtgcccaga caagagccaa tgttcagatg gatgagattc tcagatctga gcacgtggga
5041 gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgagt gacgccaacc
5101 catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa caatgaggtt atggctctgg
5161 agcccgttgt tggtgccgcc attgcggcac ctgtagcggg ccaacaaaat gtaattgacc
5221 cctggattag aaacaatttt gtacaagccc ctggtggaga gtttacagtg tcccccagaa
5281 acgctccagg tgaaatacta tggagcgcgc ccttaggccc tgatctaaat ccctacctat
5341 cccatttggc cagaatgtat aatggttatg caggtggttt tgaagtgcag gtaattctcg
5401 cggggaacgc gttcaccgcc gggaaagtca tatttgcagc agtcccacca aatttcccaa
5461 ctgaaggctt gagccccagc caggtcacta tgttccccca tatagtagta gatgttaggc
5521 aactagaacc tgtgttgatt cccttacccg atgttaggaa taatttctat cattacaacc
5581 aatcaaatga ccccaccatt aagttgatag caatgttgta cacaccactt agggctaata
5641 atgctgggga cgatgtcttc acagtttctt gccgagttct cacgagacca tcccccgatt
5701 ttgatttcat atttctagtg ccacccacag ttgagtctag aactaaacca ttctctgtcc
5761 cagttttaac tgttgaggag atgaccaatt caagattccc cattcctctg gaaaagttgt
5821 tcacgggtcc cagcagtgcc tttgttgttc aaccacaaaa cggtaggtgc acgactgatg
5881 gcgtgctcct aggcaccacc caattgtctc ctgtcaacat ctgcaccttc agagggggtg
5941 tcacccacat tacaggtagt cgtaactaca caatgaattt ggcttctcaa aattggaaca
6001 attatgaccc aacagaagaa atcccagccc ctctaggagc tccagatttt gtggggaaga
6061 ttcaaggcat gctcacccaa accacaaggg cagatggctc aacacgcggc cacaaagcta
6121 cggtgtacac tgggagcgcc gactttgctc caaaactggg cagagttcaa tttgaaactg
6181 acacagacca tgattttgaa gctaaccaaa acacaaagtt caccccagtc ggtgtcatcc
6241 aagatggcag caccacccac cgaaatgaac cccaacagtg ggtgctccca agttactcag
6301 gcagaaatac tcacaatgtt catctggccc ccgctgtagc ccctactttt ccgggtgagc
6361 aacttctctt ctttaggtcc actatgcccg gatgtagcgg gtaccccaac atggatttgg
6421 actgtctgct cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat
6481 ctgatgtggc tctgctaaga tttgtgaatc cagacacagg tagggttttg tttgagtgca
6541 aacttcataa atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc
6601 cccccaatgg ttattttagg tttgattcct gggtcaacca gttctacacg cttgccccca
6661 tgggaaatgg agcggggcgt agacgtgtag tataatggct ggagctttct ttgctggatt
6721 agcatctgat gtccttggct ctggacttgg ttcccttatc aatgctgggg ctggggccat
6781 caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caagcatcct tccaatttag
6841 cagcaatcta caacaggctt cctttcaaca tgacaaagaa atgctccaag cacaaattga
6901 ggccaccaaa aagctacaac aggaaatgat gagagttaag caggcaatgc tcctagaggg
6961 tgggttctct gagacagatg cagcccgcgg ggcaatcaac gcccccatga caaaagcttt
7021 ggactggagc gggacaaggt actgggctcc tgatgctagg actacaacat acaatgcagg
7081 ccgcttttcc acccctcaac catcgggggc actgccagga agagctaatc ttagggatgc
7141 tgtccctgct cggggttcct ctagtaaatc ttttaactct tctactgcta tttctgtgta
7201 ctcaaatcaa accacttcaa cgagacttgg ttctacagct ggttctggta ccagtgtctc
7261 gagtctcccg tcaactgcaa ggactaggag ctgggttgag gatcaaagta ggaatttgtc
7321 ccctttcatg aggggggccc acaacatatc gtttgtcacc ccaccatcta gcagatcctc
7381 tagccaaggc acagtctcaa ccgtgcctaa agaggttttg gactcctgga ctggcgcttt
7441 caacacgcgc aggcagcctc tcttcgctca cattcgtaaa cgaggggagt cacgggtgta
7501 atgtgaaaag acaaaattga ttatctttct ttctctttag tgt
//