Typing tool
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Typing tool
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Complete norovirus genomes
| OP729313 | GII.20 | |
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| GII.P20 |
ORF1: 1..4870
ORF2: 4851..6464
ORF3: 6464..7240
LOCUS OP729313 7245 bp RNA linear VRL 01-NOV-2022
DEFINITION Norovirus GII isolate OAS5 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION OP729313
VERSION OP729313.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7245)
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. v3.15.4
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7245
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="OAS5"
/isolation_source="stool sample"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="United Kingdom"
/collection_date="Jan-2017"
/note="genotype: GII.P20/GII.20"
gene <1..4870
/gene="ORF1"
CDS <1..4870
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="UYR50067.1"
/translation="PPPNGEDVVYYNSKNDTVDGLPDLTTVQDEHEHSPYTVPPLSER
EHKPAMEPLPGTILEMWDGEFYHYSIYVSNGKALGVHKPPAAISVATIDLTPISLYWR
PVYTPPYLVHPDTLKGLAGEKFPYTAFSNNCYNFCCWVLDLNDSWLSRKSISRTTGFY
KPYQSWNRKPLPTVDDGKIKKVANAVLCALGSLFSKPIKDLLGKLKPLNLLNLLASCD
WTFAGIVETVILAAELFNVFWTPPDVSNFIASLIGDFEMQGPEDLAVELVPVVMGGIG
MVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEMETLRAI
EDAVLDMEAIGNNHLTTLLKDKDSLTAYMKTLDLEEEKARKLSTKSSSPDIVGTINAI
LARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARQLAKTIAGTMTGDQRV
GLVPRNGVDHWDAYRGERVVLWDDYGMGNTIKDALTLQELADTCPVTLNCDRIENKGK
MFDSDVIIITTNLVNPAPLDYVNFEACCRRIDFLVYAEAPEIEKVKKDFPGQPDMWRD
HFKPDSSHIRLSLAPQGGFDKNGNTPHGKGTMKTLTQGSLTARVAGLVHERRDEFQFQ
GDEVHLYNFDANRVSAFRKLAADNKYSLMETMKVGSALKNVKTLEDLKVALRTVKFKE
CEILYRGSKYRVSSDGCGNVSVTKVKDMMSQTTNEVHSALIRLRQARARYYISCFQDL
IYTLIQVAGASFVVHRISRRFSWERWIKPSEALPEDGQVGLTDNTERWEVEPKDADPE
GKKGKNKKGRGRKHTAFSSKGLSDEEYDEFKRVREERGGKYTIEEYLQDRDRFYEEVA
VARATEEDFCEEEIAKIRQRVFRPTKKQRKEERSVLGLVTGSEIRKRKPDDFQPKGNL
WADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGVRELFG
VDIKQVQIHKSGEFCRFRFPRPIRPDVTGLILEEGAPEGTVCSILVRRPTGEMIPLAV
RMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTIPGDCGCPYIYKRGNDIVVAGVH
TAAARGGNTVICATQGPDGEAVLEGGDDKGTYCGAPILSVGKAPKLSTKTKFWRSSPE
ALPPGTYEPAYLGGKDPRVEKGPSLHQVMRDQLKPFTAPRGKPPNPTVLEEAKKTVMN
VLEQTIDPAKPWTYAQACASLDKTTSSGSPHHLKKNDHWNGESFTGPLADQASKANLM
YEQAKHVSPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGLLDSMKE
SCVALPCRVGMNMNEDGPIIFDKHSKYRFHYDADYSRWDSTQQRCILAAAMEVMVKFS
AEPELAQIVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWIITLSAMAEV
SGLSPEVIQANSCFSFYGDDEIVSTDINLDPAKLTQKLREYGLVPTRPDKTEGPLVIT
ENLHGLTFLRRTVTRDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHSQRATQL
MALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTWEGDRN
LAPDGVNEDGVE"
mat_peptide <1..775
/gene="ORF1"
/product="p48"
mat_peptide 776..1873
/gene="ORF1"
/product="NTPase"
mat_peptide 1874..2395
/gene="ORF1"
/product="p22"
mat_peptide 2396..2794
/gene="ORF1"
/product="VPg"
mat_peptide 2795..3337
/gene="ORF1"
/product="Pro"
mat_peptide 3338..4867
/gene="ORF1"
/product="RdRp"
gene 4851..6464
/gene="ORF2"
CDS 4851..6464
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UYR50068.1"
/translation="MKMASNDASPSSDGSANLVPEINNEVMALEPVAGAAIAAPVAGQ
QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEVLLNLPLSPDINPYLAHLSRMYNGYAGG
VEVEVVLAGNAFTAGKIIFAAVPPNFPPENLSPSQITMLPHIIVDVRQLEPVRIPLPD
VRNNFYHYSRENDSTLRLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESKSKPFTIPILTIEEMTNSRFPAPLEMMTTGPSHEIVVQPQNGRCTIDGVLLGTT
QLSPVNICSMRGVPTKRDNGNNNCFVHLENINGTPYDPTEDIPAVLGAPDFVGVLYGT
ISQRSPDNSTRAHPFTLNTGDDRYTPKLGSIDIHIDDVDDMQNNQTVKMTPVGLAGLE
RGSTTHQWQLPRYSGVATHNMHLAPSVSPLFPGEQILFFRSTVPGCGGYPDTKIDCLI
PQEWVQHFYQESAPARTDVALLRFINPDTGRVLFECKLHKQGYITVAYSGVHDLVMPP
NGYFRFESWVNQFHTLAPMGTGSGRRRIQ"
gene 6464..7240
/gene="ORF3"
CDS 6464..7240
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UYR50069.1"
/translation="MAGAFLANLAGGVASNGIGSLINAGANAINQRVEYDFNRQLQNA
SFAHDKDMLQAQIQATKQLQRDMMAIKQEVLTAGGFSPADAARGAVGAPMTKLVDWSG
TRYWAPNSMKTTGYSGTFSSQPISQLATQPKVVKQPAPGKNPPSVPSSGSSVSSLVTQ
STSLQSSPSRSASSQSTSLTIPSHSRTSDWVRSQNDRLSPFMGGALQTAFVTPPSSRA
SSAGTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESRV"
ORIGIN
1 ccccccccca aatggtgagg acgtggttta ttacaacagt aaaaatgaca ccgttgatgg
61 cttgcctgac ctgaccacag tccaggatga gcatgaacat tctccttaca cggtgccccc
121 tctaagtgaa agagaacaca aacccgcaat ggaaccatta ccaggcacca tacttgaaat
181 gtgggatggt gagttttacc attactccat atatgtcagc aacggcaagg cgcttggcgt
241 gcataaacca cccgctgcta taagcgtcgc caccattgat ttgactccca tatcattata
301 ctggaggcca gtgtacactc caccatacct agtgcaccct gacactctca agggccttgc
361 tggagagaaa tttccataca cggcatttag caacaattgt tacaatttct gttgctgggt
421 tctggacttg aatgactcgt ggctgagtag gaaatccata tccagaacaa ctggtttcta
481 taaaccatac caatcatgga acaggaaacc cctccccaca gttgatgatg ggaagatcaa
541 gaaggtggcc aacgcagtgt tgtgtgccct aggatcactg ttctcaaaac ctatcaaaga
601 cttgcttgga aagttgaaac ccctgaactt gcttaaccta ttggcatcat gtgattggac
661 attcgccggg atagtggaaa cggtcatcct ggcagcagag ttattcaatg tgttttggac
721 tccccctgat gtgtccaatt ttatagcctc tctgattggg gactttgaaa tgcaagggcc
781 ggaagatctc gccgtggagc ttgtgcccgt agtgatgggg gggattggaa tggttctggg
841 cttcaccgca gaaaagatag ggcgcatgct ttcttcggcc gcctccactt taagggcttg
901 taaagacctg ggaaactacg ccctggacat actcaagctg gtcatgaaat ggttcttccc
961 caagaaggag gagaaggccg agatggaaac cctgagagcc atagaagatg cggttcttga
1021 tatggaggca ataggcaata accacctgac tacactgctc aaagacaaag acagtctaac
1081 cgcctacatg aaaaccctgg atttggaaga agaaaaggca cgaaagcttt caacaaaatc
1141 atcatcacca gacattgtgg gcacaataaa cgcgatcttg gccagaatcg cggctgctag
1201 atcacttctc cacaaagcta aggaagaaat gttcagcagg attagacctg ttgtagtgat
1261 gatctcagga agacccggta tagggaaaac ccatatggcg aggcaattgg ccaaaacaat
1321 cgccggcacg atgactggag accagagagt cggacttgtt cctcgcaatg gggttgatca
1381 ttgggatgcc tacagggggg agagagtggt tctttgggac gattacggta tggggaatac
1441 aatcaaggat gccctcaccc tgcaagaact ggcggataca tgccccgtca cccttaactg
1501 tgacaggatt gagaacaaag ggaaaatgtt tgacagcgat gtcatcataa taaccaccaa
1561 tctagtcaac ccagcacccc tcgactacgt caacttcgag gcctgctgca gaagaattga
1621 cttcctagtc tatgctgaag ctccagaaat agaaaaagtg aagaaagact tcccaggaca
1681 accggatatg tggcgcgacc acttcaaacc agattcatcc catatcagac tgtccctggc
1741 ccctcaaggt gggtttgaca agaatggaaa caccccacat ggaaaaggaa cgatgaagac
1801 cctcacccag ggctccctca ctgctcgagt agccggcttg gtgcatgaga ggagggacga
1861 gtttcagttc caaggggatg aggtgcatct ttacaacttt gatgccaaca gagtgtctgc
1921 atttaggaag ttagcagctg acaataagta cagcctcatg gaaactatga aggttggttc
1981 cgccctcaag aatgtcaaaa ccctagaaga cctaaaggtc gcactcagga ctgtaaaatt
2041 caaagagtgc gaaatattat acagagggtc aaagtaccgt gtctcatccg atggctgtgg
2101 gaatgtctca gttactaaag taaaagacat gatgtcacag accaccaatg aggttcactc
2161 agccttgatc agattgagac aagcccgggc taggtactac attagttgct tccaagacct
2221 aatttacacc ctcatccagg ttgccggcgc ttccttcgtt gtgcacagaa tatcaaggag
2281 gttctcatgg gagcggtgga tcaaaccctc tgaggccctt cccgaggatg gccaagtcgg
2341 cctaacggat aacactgaga ggtgggaggt tgagccgaaa gatgccgatc cagagggcaa
2401 gaaaggtaaa aacaagaaag gcagaggcag aaaacacaca gccttctcta gcaagggcct
2461 cagtgatgaa gagtatgatg aattcaagag agtgagggaa gaaaggggtg gaaagtacac
2521 catcgaggaa tacctccaag acagagaccg cttttatgaa gaggtagcgg tagctcgtgc
2581 cactgaagag gacttctgtg aggaagaaat tgctaagatc agacagcggg tctttaggcc
2641 taccaagaag caaaggaaag aagagcgcag tgtccttggc cttgtgactg ggtctgaaat
2701 cagaaaaagg aaaccagatg acttccaacc aaagggcaac ctctgggctg atgacacaag
2761 gagtgtagac tacaatgaga gattagactt tgaggcccca cctagcgttt ggtcacgtat
2821 agtccccctg ggtactggct ggggattctg ggtttcatca aatctgctca taactaccac
2881 tcatgtgcta ccaaaaggtg ttagggaact atttggtgtt gacataaaac aagttcaaat
2941 acataaatca ggtgaatttt gcagattcag atttccccga ccaattaggc cagatgtgac
3001 cgggttaatc ctagaagaag gggcgcccga aggcacagtg tgttcaatcc tagtgaggag
3061 acccacaggg gaaatgatcc ctcttgctgt taggatgggg acacatgcct ccatgaagat
3121 acaaggtaga acagttggtg ggcagatggg catgcttctg accggagcga atgccaagaa
3181 catggacttg ggcaccatac caggagactg tggctgtcca tacatttaca agaggggtaa
3241 tgacattgta gtagccggag ttcacactgc tgctgcaaga ggaggaaaca ctgtcatctg
3301 tgccacacaa gggcctgacg gagaggccgt tttggaagga ggggacgaca agggaacgta
3361 ctgtggcgcg ccgatactta gtgttggcaa ggcccctaaa ttgagcacaa aaacaaaatt
3421 ctggcgatca tccccagaag cattgccacc aggaacgtac gaacctgcct acctgggtgg
3481 caaagacccc agggttgaaa aaggaccttc gctccatcag gtcatgagag atcaattgaa
3541 acctttcacc gcgcccaggg gaaaaccgcc gaatcccact gtccttgaag aagccaagaa
3601 gaccgttatg aatgtcctcg agcaaaccat agaccctgca aaaccttgga cctatgctca
3661 agcctgcgct tctcttgata aaaccacctc cagtggcagt ccccaccacc tgaagaagaa
3721 cgaccactgg aacggagaat ctttcacggg acccttagct gaccaagcct ctaaagccaa
3781 cctaatgtat gaacaggcga aacacgtcag tcctgtttat acagcagccc tcaaggatga
3841 gttagtcaaa actgacaaga tctacaaaaa gattaagaag aggttgttgt gggggtctga
3901 tctgggcact atgatcaggt gtgctagggc ctttgggggt ctccttgaca gtatgaaaga
3961 gagctgtgtg gccttacctt gtagagtagg tatgaacatg aatgaagatg gccccatcat
4021 atttgacaag cactcaaaat acagattcca ttatgatgca gattactcta ggtgggactc
4081 aacacagcaa aggtgcatct tggccgcagc aatggaggtc atggtgaagt tctcagctga
4141 acccgagctg gcccaaatag ttgcagaaga cctgctagcc cctagccaac ttgatgttgg
4201 ggactttgtg atctccgtgc aggagggtct tccttctggt gtcccttgca cttcacaatg
4261 gaactcaata gcacattgga tcatcaccct aagtgctatg gcagaagtgt ctggtctctc
4321 cccagaagtt atacaggcca actcatgctt ctctttttac ggggatgatg agatagtgag
4381 cactgatatt aacttggacc cagccaaatt gactcagaaa ttgagggaat atggattagt
4441 gcccaccaga ccagataaga cagaaggccc cttagttatc actgaaaact tgcatggact
4501 gacatttctg cgaagaactg tcactcgtga cccagcaggt tggtttggaa aactggatca
4561 agactcaatt ctaagacagc tttactggac aagaggccca aatcatgaga acccctacga
4621 aagcatggtc ccccactcac aacgtgccac tcaactcatg gcccttttgg gggaagcctc
4681 tctccatgga ccccaattct acaagaaagt cagcaagatg gtcattaatg agataaaaag
4741 tggtggtctg gagttttatg tgcccagaca agaggccatg tttagatgga tgagattttc
4801 agacctcagc acatgggagg gcgatcgcaa tcttgctccc gatggtgtga atgaagatgg
4861 cgtcgaatga cgcgagtccg tctagtgacg ggtcagccaa cctcgtccca gagatcaaca
4921 atgaggtgat ggctcttgaa ccagtagcag gtgctgctat tgccgcacca gttgctggac
4981 aacaaaatat aatagatccc tggattagaa ataattttgt gcaggcccct ggtggtgaat
5041 ttacagtttc cccaagaaat gcaccagggg aagtgctcct aaatttgcct ttaagccctg
5101 atatcaaccc atatttggcc catttgtccc gaatgtacaa tggctatgca ggaggcgtgg
5161 aggtagaggt ggtcctcgct gggaatgcgt tcacggcggg aaaaatcatc tttgccgcag
5221 tgccacccaa tttccctcct gaaaacctta gcccaagcca aataactatg ctcccccata
5281 ttatagttga tgttaggcaa ttggaaccag tgcgcatacc cttgccggat gtgcgcaaca
5341 atttctacca ttattcaaga gaaaatgatt ccacattgag gttgattgca atgctgtata
5401 ctccccttag agctaataat gctggtgatg atgtcttcac tgtctcctgc agggtgttaa
5461 caagaccctc tcccgacttc gatttcatat ttctggtgcc tcctactgtt gaatctaagt
5521 ctaagccctt tactatccca atcttgacta ttgaggagat gactaactcc agatttcccg
5581 ccccattgga aatgatgact actggcccga gccacgagat tgtggtgcaa ccgcagaatg
5641 ggcgctgcac tatcgatgga gtgctgctcg gcaccacaca attgtctcct gttaacatct
5701 gctctatgag gggtgtcccg acaaagaggg ataatggaaa caacaactgc tttgtgcatc
5761 ttgagaacat caatggaacc ccctatgatc ctactgaaga catccctgcc gtgctgggag
5821 cgcctgattt tgtgggagtg ttgtatggga caatcagcca aaggagcccc gacaactcaa
5881 ccagggccca ccccttcacc ctcaacactg gagatgacag gtacacccct aagttaggtt
5941 ccatagacat acacattgat gatgtcgatg acatgcaaaa caaccaaact gtgaaaatga
6001 ccccagtggg tttagctgga ttggaaagag gatcaaccac ccaccagtgg caactaccaa
6061 ggtactccgg ggtggccacc cacaacatgc acttggcccc atctgtctcc cctcttttcc
6121 ctggagagca aattcttttc ttccggtcga cagtccccgg ctgtgggggt tacccggaca
6181 caaaaattga ctgcttaatc ccccaggaat gggtccagca tttctaccaa gagagcgccc
6241 cagcgcgcac tgatgtggcc ctgctgagat tcatcaaccc ggatactggc agggttctat
6301 ttgagtgcaa attacataaa caagggtaca tcactgtggc ctattcagga gttcatgatt
6361 tggttatgcc ccctaatgga tacttcagat ttgagtcttg ggtgaatcag tttcacactc
6421 ttgcccccat gggaacaggt tcgggcagaa ggcgcatcca ataatggcag gagcattctt
6481 ggcaaattta gctggtggtg tggcgtcaaa cggaatcggg tcattgatca atgcaggcgc
6541 gaacgccata aatcagaggg tggaatatga tttcaacaga cagttacaaa atgcatcatt
6601 tgcccatgac aaggacatgc tccaagcaca gattcaggca acaaaacagc ttcaacgcga
6661 catgatggcc atcaagcagg aggtcttgac cgcgggcggc ttttcccctg ctgatgccgc
6721 aagaggggcg gttggggcac caatgacaaa actagttgac tggagtggta caaggtactg
6781 ggcaccaaat tctatgaaga ccacaggcta ttccggaact tttagcagcc aaccaatctc
6841 acaactcgca actcaaccaa aagttgtgaa acaaccagct ccagggaaaa accccccctc
6901 agtcccctca agtggttctt ctgtgagttc tcttgtgaca caatcaactt ccctacagag
6961 ttcccctagt agatcagcat ctagccaatc aacgagcctc accattccct ctcattcaag
7021 aacatcagac tgggtccgca gtcagaatga caggctgagc cctttcatgg gtggagcact
7081 tcaaacagcc tttgtgactc ccccatcaag tagggcttct agtgctggca cagtctcaac
7141 cgtgccaaag gaggttttgg actcctggac tcccatgttt aacacacata ggcagccact
7201 cttcgcccat cttcgtaggc gaggggagtc acgagtctag tgaaa
//