Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MK907786 | GII.6 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..5062
ORF2: 5043..6686
ORF3: 6686..7421
LOCUS MK907786 7421 bp RNA linear VRL 02-NOV-2019
DEFINITION Norovirus GII isolate G19_015 nonstructural polyprotein (ORF1)
gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3)
gene, partial cds.
ACCESSION MK907786
VERSION MK907786.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7421)
AUTHORS Strubbia,S., Phan,M.V., Schaeffer,J., Koopmans,M., Cotten,M. and Le
Guyader,S.
TITLE Optimisation of agnostic metagenomic approaches to characterise
human enteric viruses in sewage
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7421)
AUTHORS Le Guyader,S. and Strubbia,S.
TITLE Direct Submission
JOURNAL Submitted (09-MAY-2019) LSEM, IFREMER, Rue de l'Ile d'Yeu, NANTES
44311, France
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.12.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7421
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="G19_015"
/isolation_source="sewage"
/db_xref="taxon:122929"
/country="France: Nantes"
/collection_date="08-Jan-2014"
/note="genotype: GII.6-GII.P7"
gene <1..5062
/gene="ORF1"
CDS <1..5062
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QCO93059.1"
/translation="FGSQNSVNDSINTAPSNKEEVGAFSNIKVGFKKMLGAVPKGTKA
PSSEQHCPSVKIGTKTLTVPPEPPNGEDTVQFDAKSETVRGLPDLTTVQNEHENTPYT
VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELT
PISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRSI
SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL
HLLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLIGDFELQGPEDLAVELVP
VIMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE
METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI
VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT
MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADTCPVTLNCD
RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPG
QPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER
RDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKSVKTLEDLKVAL
RDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAALLRLRQARARYY
VSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEKEVAQGRWEIEP
KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR
YYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKRRPDDF
QPKGDLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG
VKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGE
MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI
VVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAPKLSTKTKF
WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEA
KKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQA
SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL
MDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME
VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL
SAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTE
GPLVITEDLTGLTFLRRSVARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHS
QRATQLMALLGEASLHGPQFYKKVSKMVISEIKSGGLEFYVPRQEAMFRWMRFSDLST
WEGDRNLAPEGVNEDGVE"
mat_peptide <1..970
/gene="ORF1"
/product="p48"
mat_peptide 971..2068
/gene="ORF1"
/product="NTPase"
mat_peptide 2069..2587
/gene="ORF1"
/product="p22"
mat_peptide 2588..2986
/gene="ORF1"
/product="VPg"
mat_peptide 2987..3529
/gene="ORF1"
/product="Pro"
mat_peptide 3530..5059
/gene="ORF1"
/product="RdRp"
gene 5043..6686
/gene="ORF2"
CDS 5043..6686
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QCO93057.1"
/translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTSRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
AIDFKGTVFGVASQRNTTGSSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESTDFDDG
QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGIGQGRRRAQ"
gene 6686..>7421
/gene="ORF3"
CDS 6686..>7421
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QCO93058.1"
/translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
TRYFAPNSMKTTSYSGQFSSNPVHRQPTLPRSDPPKIKVNSDSASVYSSASSAPSQST
HSTALTAGSSSSRTTSSSAASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKAS
SYGSVSTVPKAVLDSWTPMFNTHRQPL"
ORIGIN
1 ctttggcagc caaaactctg tcaatgacag tatcaacacc gccccttcta ataaagaaga
61 ggttggtgca ttctccaaca ttaaagttgg ttttaagaaa atgctgggtg ccgttcccaa
121 ggggaccaaa gcacccagta gtgagcagca ctgcccctca gttaagattg ggaccaagac
181 attaacagtt ccccctgagc ccccaaatgg tgaagacacc gtgcagtttg atgcaaagtc
241 ggaaacagtg cgcgggctac cagacttgac aacggtgcag aatgaacacg aaaacacacc
301 atacaccgtc cccccattga gtgaaaggga acacagacca gccactgaac cgcttcctgg
361 cacaatactg gagatgtggg atggtgaatt ctaccattac tctgtgtacg tcagcggtgg
421 caaagcccta ggggttcaca agccccctgc agcgataagc ctcgcgacga tagagctcac
481 acccatatct ctttattgga ggcccgttta cacccccaac tatctggtct gtccagacac
541 gttgaaaggc cttgctggtg agaagttccc ctacacggcc ttcagcaaca actgttacaa
601 cttctgttgc tgggtgcttg aactcaatga cacgtggctt agcaggagaa gcatctctag
661 gactaccggc ttcttcaaac catatcagtc ttggaatagg aaaccccttc caaccgttga
721 tgatggaaag atcaagaagg tggccaacgc aattctctgc gcacttggat cactgttttc
781 aaaaccaatc aaggacctat tgggcaaact caaaccattg aacctgctgc acttgctcgc
841 atcatgtgac tggacgttcg cgggcatagt agagacagtc atcctaatgg cggaactttt
901 caacatcttt tggacaccgc cagatgtttc cagtttcata gcctccctga taggtgattt
961 tgaattgcaa gggcctgagg acctggctgt ggagcttgtc cccgtgatca tgggtggcat
1021 aggaatggtt ctcggcttta ctgctgagaa gataggccgc atgctgtcgt ccgctgcatc
1081 aacactacgg gcatgcaaag acttggggaa ttatgccctt gacatattga aactggttat
1141 gaagtggttc ttcccaaaga aagaagagaa agccgagatg gaaaccctaa gggcgattga
1201 ggatgccgtc ctggacatgg aagctatagg aaataaccat ctcacaaccc tcctcaagga
1261 caaggatagc ctcacggctt tcatgaagac tctagatcta gaagaggaga aggcaaggaa
1321 gctgtccacc aaatcatcct cgccagacat cgtcggcact attaatgcca tactggccag
1381 aatagctgct gccaggtccc tcttgcacaa ggctaaagaa gaaatgttta gcaggattag
1441 acccgtggtt gtcatgatat cgggtagacc tggcattggc aaaacccaca tggcaagaca
1501 cttggctaag agtatcgcca acaccatgag cggcgaccag agagtaggac tcgtcccacg
1561 caacggggtc gatcattggg acgcctacag gggagagagg gtggtcttat gggatgatta
1621 tggcatggga aaccctgtca aagatgccct aacactgcaa gagttggccg acacctgccc
1681 agtaactcta aactgtgata ggatcgagaa caaggggaag atgtttgaca gtgatgtcat
1741 cataatcacg accaatctag tcaacccggc gcccctcgat tatgtaaact tcgaggcgtg
1801 ctccagaagg gtcgactttc tggtctatgc agagtcacca gaaattgaga aggttaagag
1861 agatttcccc ggccaacctg acatgtggaa ggaccatttt aagccagact tttcccacat
1921 aaaactgacc ctagccccac agggtggatt tgacaagaat ggcaacaccc cgcatggtaa
1981 gggcaccatg cgatccctaa cccagggttc cctgactgca agggttgcag gtcttgttca
2041 tgagaggaga gacgagtttc agctccaggg gaacgacctt caaacataca actttgacac
2101 caacagggtc tctgcattta ggaagctggc cgcagacaac aagtatggga tcatggagac
2161 tatgagagtg ggcacagcgc ttaagagtgt caagaccctg gaggatctga aagttgcact
2221 gagggatgtg aagttcaatg agtgtgagat aatttacaga aactccaaat accgagtctc
2281 ttccaatggt aaaggttctg tctctgttga caaagttgag gaccaaacat cccagactgc
2341 aaacgaagtg ggtgcagcac tccttagact caggcaggca agagccagat actatgtcag
2401 ctgcttccaa gatctcgttt acactctaat acaggtcgcc ggagcatcat tcgttgtcaa
2461 caggatctct aaaaggttct gctgggagag atgggtcaaa ccaaccgaga cccaggaaac
2521 gagtgaatcc gaaaaggaag tggcccaagg cagatgggag attgagccca aggacacaga
2581 gccagaaggt aagaagggta agaacaagaa aggaagaggc aagaaacaca cagctttctc
2641 cagtaaaggc ctgagtgatg aggagtatga cgagttcaag agaatcagag aagaaaggaa
2701 cggaaaatac tccattgagg aatacctgca agaccgggat cgctactatg aggaagtggc
2761 agttgcccgg gcgacagagg aggacttctg tgaagaggag gaggccaaga taagacaaag
2821 aatctttcgc cccacgaaga aacagaggaa ggaagaaagg ggggtgcttg gtttggtcac
2881 tggctcagac atcaggaaga gaagaccaga cgattttcaa ccgaagggtg acctgtgggc
2941 agacgatacc aggagtgtgg actacaacga gagacttgat ttcgaggcgc ctccgagtgt
3001 ctggtcgaga atagtcccat tgggcactgg ctggggcttc tgggtctcat caaacctcct
3061 gatcacaaca acacacgtcc tgcctaaggg ggttaaggaa ctttttggag ttgaaatcaa
3121 acagattcaa atccataagt ctggagagtt ctgcaggttc aggttcccga gaccaattag
3181 accagatgtc acagggctcg tgttggagga aggcgctcca gaaggcactg tctgctccat
3241 actcgtaaag agacctacag gtgagatgat ccccttggca gtgaggatgg gcacgcatgc
3301 atctatgaaa atacagggta ggaccgtcgg tggccagatg ggaatgctcc tcacaggggc
3361 aaatgcgaag aacatggatc ttggtaccgg tcctggtgac tgcggttgcc cttacatcta
3421 caaacgtggc aatgacatag ttgtcgcggg tgtccacacc gcagcagccc ggggaggcaa
3481 cactgtcata tgtgccactc aagggcaaga tggggaagca gtccttgagg gaaatgagaa
3541 ccttggcact tactgcggtg ccccaatctt gggtccaggc aaggcgccca aacttagcac
3601 gaagaccaag ttctggcgct catcaccaga cgctttgccg ccaggcactt atgagcctgc
3661 ctacttggga ggtaaggacc ccagagtgga aaaaggacca tctctgcagc aagtcatgag
3721 ggaccagcta aaacctttca cagaacccag gggcaagcca cctagacctg cagtcttaga
3781 agaggccaaa aagacagtga tgaatgttct agagcaaacc attgaccctg ctaagccgtg
3841 gacctattcc caagcatgtg cctcactgga caagaccact tccagtggta gcccccatca
3901 tgtcaggaaa aatgaccatt ggaatgggga atccttcact ggcccccttg cagaccaagc
3961 atccaaagcc aacctcatgt acgagcaggc caaacatgtg cagcccgtgt acacggccgc
4021 acttaaagat gaactagtca aaactgacaa gatctacaag aagataaaga aaaggctctt
4081 atgggggtcg gatcttggca caatgatcag gtgtgccagg gcctttggcg gtctcatgga
4141 tagcatgaag gcaagttgca tagccctccc atgtagggta ggaatgaaca tgaatgaaga
4201 tggtcccatc atatttgaca aacattctaa gtataggtat cattatgatg ctgactattc
4261 caggtgggac tcaacccagc aaaggagcat tctctcggcc gctatggaag tgatggtgcg
4321 gttctctgcc gaaccagagc tggcacaggt ggttgcagag gacctcctgg cacccagcca
4381 actagatgtt ggcgatttcg tcatctcagt ccaggagggt ctgccatcag gggttccatg
4441 cacatcacaa tggaattcaa tagcacactg gatcctaacc ttgagtgcaa tggcagaagt
4501 gtcgggtctc tcaccagatg ttgttcaagc ccactcctgt ttctcattct acggtgatga
4561 tgagatcgtc agcactgaca tcaaccttga tcccatgaag ttgacacaga aactcagaga
4621 gtatggcctg gtccccactc gacctgacaa aactgagggt cccctcgtaa taactgaaga
4681 cctcaccggc ctaacgttcc tgcgtaggtc agttgcacgg gacccagctg ggtggtttgg
4741 gaaattggac caagactcaa tcctcagaca gttgtactgg acaaggggcc ccaatcatga
4801 gaacccatat gagagcatgg tccctcattc ccagcgggcc acacagctta tggcccttct
4861 cggtgaggct tcactgcatg gcccccagtt ttacaagaag gttagcaaga tggtcattag
4921 tgagatcaaa agtggtggtc tggaattcta tgtgcccaga caagaggcca tgttcagatg
4981 gatgagattt tctgacctca gcacatggga gggcgatcgc aatcttgctc ccgagggtgt
5041 gaatgaagat ggcgtcgaat gacgctgctc catcgaatga tggtgccgcc aacctcgtac
5101 cagaggccac caatgaggtt atggcacttg agccggtggt gggagcctca attgctgctc
5161 ctgtcgtcgg ccaacaaaat ataattgacc cctggattag agaaaatttt gttcaggcac
5221 cacagggtga gtttactgtt tcaccaagga actcacctgg tgagatgctt ctaaatcttg
5281 aattaggccc tgagctcaat ccttatctga gtcacttgtc ccgcatgtat aacggctatg
5341 ctggtggtat gcaggttcag gtggtcctag ctgggaatgc gttcacagct ggtaaaatca
5401 tctttgccgc cgtcccacca cattttcctg ttgagaacat tagtgcagcc caaattacaa
5461 tgtgccccca tgtaattgtt gatgtaagac agcttgagcc agtgcttttg cccctccctg
5521 acataaggaa tagattcttt cattataatc aggaaaacac ctctcggatg agacttgtgg
5581 ctatgttgta cacacccctt agagcaaatt ctggtgagga tgtgtttaca gtgtcttgca
5641 gagttctgac ccgccctgcc cccgactttg agttcacgtt cttggtgcca ccaactgtgg
5701 agtcaaagac taagcccttt acactcccta ttctaactct tggagaactg tccaactcca
5761 gattccccgc tccgatagac atgttgtaca ctgaccctaa tgaggcaatt gtggtgcaac
5821 cacaaaatgg caggtgcact ctagatggaa cacttcaagg gaccacccaa ctggtaccca
5881 cccaaatttg ctccttcagg ggcacgctaa ttagccagac gtcgaggtct gcagattcaa
5941 cagattcagc cccacgggtg aggaaccacc ctctccacgt tcagctgaag aacctcgatg
6001 ggacaccata tgacccaaca gatgaggtgc cagcagtttt gggtgccata gatttcaaag
6061 gaactgtgtt tggggtcgct agtcaaagaa acaccacagg gagctctata ggagcaaccc
6121 gcgcccatga agtgcacata gataccacaa accctagata taccccaaag cttggctctg
6181 tgttgatgta ttctgaatct actgattttg atgatggaca acccacccgc tttaccccca
6241 ttggcatggg agccgatgat tggcaccaat gggaattgcc cgagtattct ggtcacctta
6301 ctcttaacat gaatttggcc cccgcagttg cccctgcttt ccctggtgag cgcattctct
6361 tcttcagatc agtggtgcca tctgctggtg gctatggatc aggtcacata gattgcctca
6421 tcccacagga gtgggttcag catttctacc aggaggccgc tccatcacag tctgcggtgg
6481 ctcttatcag atatgtcaac cctgacactg gaagaaacat ctttgaggca aaactgcata
6541 gagaagggtt catcactgtg gcaaattctg gaaacaaccc catagttgtg cccccaaatg
6601 gttacttcag gtttgaggcc tgggtcaatc aattctacac actcaccccc atgggaattg
6661 gacaggggcg cagaagagct caataatggc aggagctttc ttagctggat tggcaggtga
6721 cgccataaca agtggtgtcg ggtccctaat caatgctggg gccaatgcaa ttaaccaaaa
6781 ggtagagtat gattttaaca aacagctcca attggcatcc ttcaaacatg acaaggagat
6841 gttgcagtca caagtactgg ccactaaaca gctccagcag gaaatgatga acataaggca
6901 aggggtcttg tccgctggcg gcttttcccc tacagatgcc gcgagaggtg ctgtgaacgc
6961 gccgatgaca aaaattttgg attggaatgg aacaaggtac ttcgccccaa atagtatgaa
7021 gacaaccagt tattcgggcc agttttccag caaccctgta cataggcaac ccactttacc
7081 ccgttctgac cccccaaaaa tcaaggttaa tagtgattct gctagtgtgt atagttctgc
7141 atcttctgct ccttcacaat caacccactc aacggctttg actgcggggt ctagctcatc
7201 taggacaaca tcctcttctg cagcttccac tctatctaga accagtgact gggtgagagg
7261 acaaaatgag aggcttagcc cgtttatgga tggtgctctc caaacaactt ttgtcacacc
7321 accatcgagc aaggcttcat catatgggtc ggtctcaacc gttcccaaag ctgttttgga
7381 ctcctggact cctatgttca atacccatag gcagcctctc t
//