Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PQ100946 | GII.7 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6701
ORF3: 6701..7474
LOCUS PQ100946 7547 bp RNA linear VRL 03-AUG-2024
DEFINITION Norovirus GII isolate GII/Hu/RU/2024/GII.7[P7]/Nizhny Novgorod33,
complete genome.
ACCESSION PQ100946
VERSION PQ100946.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7547)
AUTHORS Epifanova,N.V., Oparina,S.V., Sashina,T.A., Alekseeva,A.E.,
Morozova,O.V., Kashnikov,A.Y. and Novikova,N.A.
TITLE The predominance of a previously rare genotype GII.7[P7] in Russia
in 2023-2024
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7547)
AUTHORS Epifanova,N.V., Oparina,S.V., Sashina,T.A., Alekseeva,A.E.,
Morozova,O.V., Kashnikov,A.Y. and Novikova,N.A.
TITLE Direct Submission
JOURNAL Submitted (28-JUL-2024) Laboratory of Molecular Epidemiology of
Viral Infections, I.N. Blokhina Nizhny Novgorod Research Institute
of Epidemiology and Microbiology, Malaya Yamskaya, 71, Nizhny
Novgorod 603950, Russia
COMMENT ##Assembly-Data-START##
Assembly Method :: Unipro UGENE v. 42.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7547
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="GII/Hu/RU/2024/GII.7[P7]/Nizhny Novgorod33"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Russia: Nizhny Novgorod"
/collection_date="17-Jan-2024"
/note="genotype: GII.7[P7]"
gene 5..5098
/gene="ORF1"
CDS 5..5098
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XDI41437.1"
/translation="MKMASNDASAALGSQNSVNDSNNATPSNKEEVGAFSNIKVGFKK
MLGAVPKGTKAPSSGQNCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTT
VQNQHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRTRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKS
VKTLEDLKAALRDVKFNECEIIYKSSKYRVSSNGKGSVSVDKIADNASQTVNEVHSAL
LRLRQARARYYISCFQDLVYTLIQVAGASFVVSRISRRFCWERWVKPTETHEVNEPEK
ETAQGGWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGDLWADDTRSVDYNEKLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGIKELFGVEIKQIQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSVLVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILCPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYNYDADYYRWDST
HQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide 5..1006
/gene="ORF1"
/product="p48"
mat_peptide 1007..2104
/gene="ORF1"
/product="NTPase"
mat_peptide 2105..2623
/gene="ORF1"
/product="p22"
mat_peptide 2624..3022
/gene="ORF1"
/product="VPg"
mat_peptide 3023..3565
/gene="ORF1"
/product="Pro"
mat_peptide 3566..5095
/gene="ORF1"
/product="RdRp"
gene 5079..6701
/gene="ORF2"
CDS 5079..6701
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XDI41438.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPPQITMCPHVIIDVRQLEPVLLPMPD
IRNNFFHYNQGNDPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
GVASQRNKNEQSPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
AGDTSHPFRQWVLPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ"
gene 6701..7474
/gene="ORF3"
CDS 6701..7474
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XDI41439.1"
/translation="MASAFFANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
TRYWAPGAMRTTGYSGTFTHLPPMQSASYVNNQNRQLFKVDPSPSSSSGSSVSSVKTQ
STALSGTSRVDSSSQSTLSTRPSSRTSDWVRSQNERLSPFMNGALQTAYVTPPSSRAS
SVSTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccctt ggcagtcaaa actctgtcaa
61 tgacagtaac aacgccaccc cctctaacaa agaagaggtt ggtgcattct ccaacattaa
121 agttggattt aagaaaatgc tgggcgccgt acccaaaggt accaaagcgc ccagcagtgg
181 tcaaaattgc cccacagtta agatcgggcc taaaacgcta acaatccccc ctgagccccc
241 aaacggcgag gatacagtac aatttgatgc aaagtcagaa actataattg ggctgccaga
301 cttgacaacg gtgcaaaacc aacacgaaaa caccccatat actgtccctc cactaagtga
361 gagggagcac agaccggcca ctgaaccgct tcctggcaca atattggaga tgtgggatgg
421 tgagttctac cattactccg tgtacgtcag tgatggcaaa gctctgggag tccacaaacc
481 accggcggcc ataagcctcg cgacgataga gctcaccccc atatcactct actggaggcc
541 cgtttacact cccaactact tagtctctcc agacacatta aagggcctcg ctggtgagaa
601 gttcccctac acggccttta gtaataactg ttacaatttc tgttgttggg tgcttgagct
661 caacgacacg tggcttaaca gaagatgcat ttctagaact accggcttct tcaaaccata
721 ccagtcttgg aatagaaaac ctctcccaac tgttgacgat ggaaagatca aaaaggtggc
781 caatgcgatc ctctgtgcac tcggttcact gttttcaaaa ccaattaaag acctactagg
841 taaactcaag ccattgaatc tgctacactt gctcgcgtcc tgtgattgga cgtttgcagg
901 catagtggag acagtcatct taatggcgga actttttaat gtgttctgga ccccaccaga
961 tgtctccaat tttatagctt ccctgatagg tgattttgaa ttgcaagggc ctgaagacct
1021 ggctgtagag ctcgtccccg tggtcatggg tggcataggg atggttctcg gcttcactgc
1081 tgagaagatt ggccgcatgc tgtcgtccgc tgcatcaaca ctgcgggcat gcaaagacct
1141 agggaactac gcccttgaca tactcaaatt ggtcatgaaa tggttcttcc cgaagaagga
1201 agagaaggct gagatggaaa ccctgagggc gattgaagac gccgtccttg atatggaagc
1261 tatagggaat aaccatctca cgaccctcct caaggacaaa gacagcctca cagctttcat
1321 gaagaccttg gatctagaag aggagaaggc gaggaagctg tccaccaaat catcctcacc
1381 ggacatagtc ggcaccatca acgccatatt agctaggata gctgccgcta ggtcccttct
1441 acataaggcc aaagaagaga tgttcagtag gaccagacca gtggtcgtca tgatctcagg
1501 cagacctggc attggaaaga cccatatggc tagacacttg gccaagagca tcgccaatac
1561 catgagtggt gatcagagag tcggactcgt tccacgcaac ggtgtcgatc attgggacgc
1621 ctacagagga gagagggtgg tcttgtggga tgactacggt atggggagcc ctgtcaaaga
1681 tgccctgaca ctgcaagagt tggccgacac atgtccagtc actttaaatt gtgacaggat
1741 tgagaataag ggaaagatgt ttgatagtga tgtcatcata atcacgacca acttagtcaa
1801 ccctgcaccc ctcgactatg tgaacttcga ggcgtgttct aggagagttg acttcctggt
1861 ctatgcagag tcaccagaaa ttgaaaaggt caagagagac ttccctggcc agcctgacat
1921 gtggaaggac cattttaaac cagacttttc ccatattaag ttgactctag ccccccaggg
1981 tgggtttgac aaaaatggca acaccccaca cggcaagggc accatgcggt ccttaactca
2041 ggggtcccta actgcgagag tcgcaggcct tgtccatgag aggagggacg agttccaact
2101 ccaaggaaac gacctccaga catacaactt tgacaccaac agagtctccg cattcagaaa
2161 attggctgca gataacaagt atggcattat ggagacgatg agagttggcg cagcgctcaa
2221 gagtgtgaag accttggaag atctcaaagc tgcattgagg gatgtgaaat ttaatgagtg
2281 tgaaataatt tacaagagct ctaagtaccg agtctcttcc aacggcaaag gctcggtctc
2341 tgttgacaaa attgcagata atgcttccca gactgtgaac gaggtgcatt cagcacttct
2401 tagactcagg caagcaaggg ccaggtatta catcagctgc ttccaagatc tcgtttacac
2461 tctcatacag gtcgccgggg catcattcgt cgtcagtagg atctctagaa ggttctgctg
2521 ggaaaggtgg gtaaaaccga ccgagaccca tgaagtgaat gagcccgaaa aggaaacagc
2581 ccagggtgga tgggagattg agcccaagga cacagaacca gaaggcaaga agggcaagaa
2641 caagaaagga aggggcaaga aacacacagc tttttctagc aaaggcctga gtgatgaaga
2701 gtatgatgag ttcaagagaa tcagggaaga aagaaacgga aagtactcca ttgaggagta
2761 cctgcaggac cgagaccgtt attatgaaga ggtggcggtt gctcgggcga cagaggagga
2821 cttctgtgaa gaggaagaag ccaagataag acaaagaatt ttccgcccga ctaggaaaca
2881 gaggaaggag gaaaggggcg tgcttggctt ggtcactggc tcagacatca gaaagaggag
2941 acccgacgac ttccaaccaa agggcgacct atgggcagat gacaccagaa gtgtagacta
3001 caatgagaag cttgactttg aagcacctcc aagtgtttgg tcaagaatag tcccattggg
3061 cactggttgg gggttttggg tttcatccaa ccttctgatc acaacaacac acgtcctgcc
3121 caaagggatc aaggaactct ttggagttga gatcaaacaa atccaagttc ataagtctgg
3181 agagttttgc aggtttaggt ttccaagacc tatcaggcca gatgtcacag gactcgtgct
3241 ggaggaaggc gccccagagg gcactgtctg ttctgtactc gtaaaaagac ccacaggtga
3301 aatgatcccc cttgcagtga ggatgggtac gcacgcatcc atgaaaatac agggcagaac
3361 agttggtggc cagatgggga tgctcctcac gggagcaaac gcgaagaaca tggatctcgg
3421 cactggtcct ggtgactgcg gttgccccta catctacaaa cgtggcaacg atatagttgt
3481 cgcgggtgtt cacaccgcag cagcccgtgg gggcaacact gtcatatgtg ccacccaagg
3541 gcaagacggg gaagcggtcc ttgagggaaa tgaggacctt ggcacctact gtggtgcccc
3601 aattctgtgt cctggcaagg cgcccaaact cagcacgaag accaaattct ggcgctcatc
3661 accagacgcc ttgccacctg gtacatacga acctgcttac ctaggtggca aagaccctag
3721 agtggaaaaa ggcccctccc tgcagcaagt tatgagagac cagttgagac ccttcacaga
3781 gcccaggggc aaaccgccca gacctgcagt cctagaggaa gccaaaaaga cagtgatgaa
3841 tgttttagaa caaaccattg accctgccaa gccatggtcc tactcccagg catgtgcctc
3901 acttgacaaa accacttcta gtggtagtcc ccatcatgtc aagaaaaatg accactggaa
3961 tggggagtct ttcactggtc cacttgcaga tcaggcatct aaagctaacc tcatgtatga
4021 acaggccaaa catgtgcagc ccgtgtacac ggcagcgctt aaagatgagc ttgttaagac
4081 tgacaagatc tacaagaaga taaagaagag gctcctatgg gggtcggacc ttggcacaat
4141 gatcaggtgc gccagggctt ttggcggtct catggacagc atgaaggcaa gttgtatagc
4201 tcttccttgc agggtaggga tgaacatgaa tgaagatggc cccatcatat ttgacaaaca
4261 ctccaagtac aggtacaact atgatgctga ctattatagg tgggactcaa cccaccagag
4321 gagcattctc tctgccgcta tggaagtaat ggtgcggttt tctgccgaac cagaactggc
4381 acaagtggtt gcagaggatc ttttggctcc tagccagctt gacgttggtg actttgtcat
4441 ctcagtccag gaaggtctac catcaggagt cccatgcaca tcacaatgga attcaatagc
4501 acactggatc ctgactttga gtgcaatggc agaagtatca ggtctctcac cagatgtagt
4561 ccaagctcac tcctgttttt cattttacgg ggacgatgag atcgtcagta ctgacatcaa
4621 tctcgaccct atgaagttga cacagaaact cagggagtat ggtctggtcc ccacccggcc
4681 tgataaaact gaaggccccc tcgtcataac tgaagacctc accggcctga cattcctccg
4741 taggtcgatt gctcgggacc cagctggttg gtttgggaaa ctggaccaag actcaattct
4801 cagacaacta tactggacaa gggggcctaa ccatgagaac ccgtacgaga gtatggttcc
4861 tcattctcag cgggctacac agctcatggc ccttcttggt gaggcctcgc tgcatggtcc
4921 acagttttac aagaaagtta gcaagatggt catcaatgag atcaaaagtg gtggtctgga
4981 gttttatgtg cccagacaag aggccatgtt caggtggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg
5101 cagctccatc taatgatggt gcagcaggcc tcgtgccaga gatcaacaat gaggtcatgc
5161 cccttgagcc cgtggctggt gcatcgctgg cgacaccagt tgtcgggcaa cagaacataa
5221 ttgatccctg gataagaaat aattttgtac aagctcctgc aggtgagttc acagtttctc
5281 ctagaaattc ccctggtgaa attttgcttg atttggagtt gggaccagag ttgaacccct
5341 atcttgctca tcttgcccgt atgtacaatg ggcacgctgg tggcatggaa gtgcaaattg
5401 tgttggctgg gaacgcgttc acagctggca agatcatatt tgctgccatc cctccagggt
5461 tcccatatga aaatttgtca cctccacaaa ttacaatgtg cccccatgtt ataattgatg
5521 ttagacaatt agagccagtt ttattaccta tgccagatat cagaaacaat ttcttccatt
5581 ataatcaggg taatgatcca aaattaagac tggtagctat gctctatact cctttaaggg
5641 ctaataattc tggtgatgat gtgttcacag tttcttgtag ggttctcacc aaaccatcac
5701 ctgattttga attcacattt ttggtccccc ctacagttga atccaagacc aagcaattca
5761 cattgcccat ccttaaaata tcagagatga ccaactcaag attcccagtg ccggtggaaa
5821 tgatgtacac agcaaggaat gagaatcaag ttgtccagcc acagaatggt agggtcacac
5881 tcgatggcga gctattgggc accacgccct tgttggctgt caacatctgc aaattcaagg
5941 gagaggtcat agctaagaat ggagatgtga gatcctatag gatggacatg gaaatcacca
6001 acactgatgg caccccaatt gaccccactg aagatacacc tggtcccatt ggatcacctg
6061 actttcaagg tatactcttt ggcgttgcca gtcagcgcaa caaaaatgag cagagtcctg
6121 ctaccagagc ccatgaagcc aacatcaata ctggtgggga ccaatatgcc cccaaattgg
6181 cccaagtgaa attcttttca gagtcccagg atttcgaggt gcaccaacct acagttttca
6241 ccccagttgg tgtggcaggt gatacttccc accctttcag acagtgggtc ttgcctcgat
6301 atggtggaca tctcaccaac aacactcact tggctccagc agtggccccc ctattcccag
6361 gtgagcagat tctgttcttt agatcacaaa tacctagttc aggcggccat gaattgggtt
6421 acatggactg ccttgtccca caggaatggg tccaacactt ctaccaagaa gctgccacag
6481 ctcagtctga ggtggcactc ataaggttca ttaaccctga cactggcaga gtcctctttg
6541 aggccaagct acacaagcaa ggctttataa ctgtggctca caccggtgac aacccaattg
6601 tcatgccacc aaatgggtac ttcagatttg aagcctgggt caatcagttt tactcactcg
6661 cccccgtggg aactgggaat gggcgtagga ggatccaata atggccagtg ctttctttgc
6721 aaatttggca gggggcgtcg cctccaatgg aatcagttca ctcataaatg ctggggctaa
6781 tgctattaac caaaaggttg agtttgatta taataaacaa ctccaaaatg catccttctc
6841 ccacgataaa gaaatgctcc aagcccaaat tgaagccact aaacgtttgc aacaagagat
6901 gattgacata aaacaagggg tgctgacggc tgcgggattc tctcccacgg atgccgcgag
6961 gggttctgtt ggcgcgccaa tgacaaaatt agttgattgg agtggtacca gatattgggc
7021 tcctggtgcc atgaggacaa caggatattc aggaactttt actcacttgc ctcctatgca
7081 gtctgcttca tatgttaata atcagaatag acagcttttt aaagtagatc cttctccttc
7141 ttcttcaagt ggctcttcag tttcttctgt taaaacacaa tcaactgctc tctccggcac
7201 ttcaagggtg gactcttcat ctcagtcaac cctgtcgacc aggccgagct caaggacatc
7261 tgactgggta cgtagccaaa atgaaaggtt gagccccttc atgaatggag cgttgcaaac
7321 agcgtatgta acgccaccat ctagtagggc atcaagtgtc agcacagtct cgaccgtgcc
7381 gaaagaggtt ttggactcct ggacgcctat gtttaacact cacaggcagc cgctcttcgc
7441 ccacttgcgt agacgagggg agtcacagat ttagtgaaaa gatcaattag gaaagtttga
7501 ttagttttct tttctattat tcctttaatt tttcttttaa aaaaaaa
//