Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MG495078 | GII.27 | |
|
|---|---|---|---|
| GII.P27 |
ORF1: 1..4869
ORF2: 4850..6481
ORF3: 6481..7237
LOCUS MG495078 7237 bp ss-RNA linear VRL 16-JAN-2018
DEFINITION Norovirus GII strain Hu/PE/2012/GII.PNA1-GII.NA1/Loreto1041
nonstructural polyprotein gene, partial cds; VP1 gene, complete
cds; and VP2 gene, partial cds.
ACCESSION MG495078
VERSION MG495078.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7237)
AUTHORS Chhabra,P., Olortegui,M.P., Kosek,M., Castro,C.J., Marine,R., Ng,T.
and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (13-NOV-2017) Division of Viral Diseases, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. 8
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7237
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/PE/2012/GII.PNA1-GII.NA1/Loreto1041"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Peru"
/collection_date="18-Oct-2012"
/note="genotype: GII.PNA1-GII.NA1"
CDS <1..4869
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AUD54968.1"
/translation="PNGEDIVIKYTKKEEKISGVPTVSTVDISPLHDTAYSVPPLDQR
EKVDAKEPLTGSILEMWDGEIYHYGLYVERGMVLGVHKPPSALSLARIELTPLSLYWR
TVYTPPYLVAPDTLKKLHGESFPYTAFDNNCYMFCCWVLDLNDSWLNRKYVSRTTGFY
RPYQEWNKKPLPTMDEGKLKKVANVLLCGLSGLFTRPIKDLIGKLRPLNILNIISNCD
WTFPGVVEALILLAELFGIFWTPPDISAFVASLLGDYELQGPEDIATEIVPVVLGGIG
MVLGFTKERIGRLLSSAASSLRACKEIGNYGIEVVKLIMKWFFPTKNEVNEMEMVRAI
EDAVLDFEAIENNHMTTLLKDKNSLATFLRALDMEEEKARKLSTKSASPDIVGTINSL
LARIAAARSLVHRAKEEMSSRMRPVVIMISGRPGIGKTHLARDLAKKMAATLTGDQRV
GLVPRNGVDHWDAYKGERIVLWDDYGMSNPVQDALRLQELADTCPLTLNCDRIENKGK
VFDSDTIIITTNLQNPAPLDYVNFEACSRRVDFLVYADSPTVDKAKRDFPGQPDMWKD
AFKSDFSHIKLQLAPQGGFDRNGNTPHGKGVMKTLTTHSLIARATGLLHERLDEFDLQ
GPELPLYNFDHNKVAAFRKLAADNKYGFMETIKAGNKLKEVKTLDQFKEAVKDIRIKP
CRIIYNSTAYDLESSGSGRVTVKRVGDHKVQAHNELHSALNNLRKARIRYYVKCFQEM
IYSLLQIAGAAFVTSRMTQRMNINKLWAKPERHVETPVEPPTPPIEDWTINPIDTVQE
GKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERQGKYSIEEYLQDRDRYYEELA
IAKATEENFCEEEEVKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKPKGKL
WADDDRSVNYNERIDFEAPPSLWSRIVNFGSGWGFWVSSNLFITSTHVIPPGITEAFG
VPMNQIQIHRSGEFCKMRFPKAIRPDVSGMILEEGAPEGTVTTILIKRTTGELMPLAA
RMGTHATMKIQGRMIGGQMGMLLTGSNAKNMDLGTVPGDCGCPYVYKRGNDWVVIGVH
TAAARGGNTVICATQGPDGEATLEGGDNHGTYCGAPILGPGSAPKLSTKTKFWRSSNE
PLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTAPRGKPPRPAILEAAKETICN
VLEQTIDPPQKWSYTQACASLDKTTSSGHPHHKKKNDNWNGESFTGVLADQASKANLM
FEQRKHMQPVYTAALKDELVKTSKIYDNIKKRLLWGSDLGTMIRCARSFGGLMDEMKA
NCVRLPVRVGMNMNEDGPIIFEKHSKYKYHYDADYSRWDSTQQRHILGVALEIMVRFS
AEPELAQIVAEDLLSPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCAMSEI
SGLSPDVVQSNSCFSFYGDDEIVSTDIKLDPQKLTDKLREYGLIPTRPDKTEGPLMIK
ESLEGLTFLRRDICRDPAGWYGKLDQSSIMRQMYWTKGPNHEDPNETMIPHSQRPIQL
MSLLGEAALHGPAFYKKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRN
LAPEGVNEDGVE"
CDS 4850..6481
/note="ORF2; major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AUD54969.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNETMALEPVAGGAIAAPLTGQ
TNFIDPWIRNNYVQAPNGEFTVSPRNSPGEILLNLELGPELNPFLAHLSRMYNGYAGG
IDVQVIMAGNAFTAGKIIFAAVPPHFPIDNISPPQITMFPHIIIDVRTLEPVNIPLPD
VRNSFFHYSQNNEPRMRLLAMLYTPLRSNGSADDVFTVSCRVLTKPSADFEFNYLVPP
TVESRTKPFTIPILTIGEMTNSRFPVAIDMLHTSPTDNFIVQPQNGRCTLDGELQGTT
QLVTSNICAFRGSISGHENNGDQHQWHFSITNPNGTPFDPTEDVPAPLGTPDFKGQLY
GVISQRNREGSPGNGNQKANRSHEGVISTVAPRFTPKLGSVMIGTWTTDDIQDQPSRF
TPVGLNDDDNYKQWELPNYSGALTLNMGLAPSVFPTYPGEQLLFFRSYIPMKGGYGSP
YIDCLIPQEWISHFYQESAPSQTDVALIRYVNPDTGRVLFEAKLHRQGYITVAKTGDS
PINVPANGYFRFDSWVSQFYSLAPMGTGNGRRRIQ"
CDS 6481..>7237
/note="ORF3; minor structural protein; minor capsid
protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="AUD54970.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANVINQKVDFENNKYLQNA
SFAHDKEMLNAQVEATKKLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPNATTTTSMSGGFTSQVMHRPTPNLKTNQAPKSIPSSGSSVRSNSTQLTSLSS
HSSGSSRTSGSTAISSLPSSSRTRDWVNQQNLNLEPHLPGSLKTAFVTPPSSTASSSG
TVSTVPKGVLDSWTSAFNTRRQPLFAHLRRRGES"
ORIGIN
1 cccaatggag aggacattgt catcaagtat accaaaaagg aggagaagat cagcggagta
61 cccaccgtct caactgtgga catttccccc ctgcatgaca ccgcatatag tgtcccccct
121 ctagaccaga gagagaaggt ggacgcaaag gaacccttaa caggttcgat acttgagatg
181 tgggacggtg aaatctacca ctatggcctt tatgtggaga ggggtatggt tctaggcgtg
241 cacaaaccac catccgcttt gagcttggcg cgtatcgaac taactcctct ctccctctac
301 tggaggactg tttacacacc accctaccta gtcgctccag acaccctcaa gaagctccat
361 ggtgagtctt tcccctacac ggcctttgac aataattgct atatgttttg ctgctgggta
421 ctagacttga atgactcatg gcttaacagg aagtatgtgt caagaaccac gggtttctac
481 agaccctacc aagaatggaa taagaagcct ttgccaacca tggatgaggg caaactcaag
541 aaagtggcca acgtgttgtt atgtggcctc tccggtctgt tcaccaggcc catcaaggat
601 ctcataggca aattgagacc gctaaacata ctcaacatca tatctaactg tgattggacc
661 ttccccggtg ttgttgaagc cctcatcctg cttgcagagc tctttggcat cttctggacc
721 cctccagaca tatcagcttt tgtcgcctcc ttgctgggtg actatgagtt gcaaggccct
781 gaggacatcg caaccgagat cgtgcctgtc gtcctcggtg gtattggcat ggttcttggt
841 ttcactaagg agaggattgg ccggctattg agctcagccg catcatcgct acgagcatgt
901 aaagagattg gcaactatgg gatagaggtg gttaaactaa taatgaaatg gttcttcccc
961 accaaaaatg aagtcaatga gatggagatg gtgagggcaa tagaggatgc agtgcttgat
1021 tttgaggcaa tagagaacaa ccacatgaca accctgctca aagacaagaa cagcttggcc
1081 actttcctta gagcgctgga tatggaagaa gagaaggcgc gaaaactgtc aaccaaatcc
1141 gcgtccccag acatagttgg taccataaac tccctcctag ccagaattgc tgccgccagg
1201 tccctagtcc acagggccaa agaagaaatg tcatctagga tgcgtcctgt tgtcatcatg
1261 atatctggac gacctgggat agggaagact cacttggcac gtgatctggc caagaagatg
1321 gcggcgactc tcacaggtga ccagagagta gggctcgtcc caagaaacgg tgttgaccac
1381 tgggatgcgt acaaaggaga gaggattgtt ctttgggacg attatggcat gagtaaccct
1441 gtacaggatg ctcttcgcct tcaggagctt gcggacacct gccctctgac actcaactgt
1501 gacagaatag aaaacaaggg aaaagtgttt gacagtgaca ccataatcat cacaaccaac
1561 ttgcaaaatc cggccccact tgattatgtg aactttgagg catgttcccg ccgagtcgac
1621 ttcctcgtct atgcggattc cccaacagtc gacaaagcaa agagggactt ccctggccaa
1681 ccagacatgt ggaaggatgc cttcaaatca gatttctcac atataaagtt acaattggca
1741 ccacaggggg gattcgacag gaacgggaac accccgcacg gtaagggggt catgaaaact
1801 ctcaccacac actccctaat agccagagcc accgggctgc ttcatgaaag actggatgaa
1861 tttgacctgc agggcccaga attaccactg tacaattttg accacaacaa ggtggccgct
1921 ttcaggaagc ttgcagctga caacaaatat ggtttcatgg agaccataaa ggcaggcaac
1981 aagttgaagg aagttaagac ccttgaccag ttcaaagagg ctgtgaagga catacgcata
2041 aaaccttgca gaattatcta caattccacg gcctatgatc tagaatcaag tggatctggg
2101 agagtcactg tgaagagagt gggggaccat aaagtccaag cccacaatga gctccattct
2161 gcccttaaca acctacgcaa ggccaggatt aggtactatg ttaaatgctt ccaagagatg
2221 atctattcgc tcctccagat tgctggagcg gcttttgtca cctcgaggat gacacagagg
2281 atgaacatca acaagctgtg ggccaagcct gagaggcacg tggaaactcc cgtagaaccc
2341 ccaaccccac cgattgagga ctggactata aatccaattg acacagtcca ggaaggcaag
2401 aagggtaaaa acaagagtgg caggggcaag aaacacactg cattctccag caagggtctc
2461 agtgatgagg agtatgatga atacaagaga atcagagaag agagacaagg gaaatactcc
2521 atagaagaat acctccagga cagggaccga tattatgaag aattggccat agccaaagcc
2581 actgaagaaa atttctgtga agaggaagag gttaaaataa ggcagagaat cttcaggcca
2641 accagaaaac aacgcaaaga ggagagagcc tcattgggtc tggtcacagg cagtgaaatc
2701 cggaagagga acccagatga cttcaaaccg aaaggaaaac tgtgggctga cgatgaccgc
2761 agcgtcaact acaatgagag aatagacttt gaggcccctc ccagcctgtg gtccagaata
2821 gtcaactttg gttcgggctg gggcttttgg gtttcttcca acctgttcat cacctccaca
2881 catgtcatcc caccgggcat aacggaggcc tttggagtgc caatgaacca aatccaaatc
2941 cacagaagtg gggagttttg caaaatgaga ttccctaaag ccatcaggcc tgatgtgtct
3001 ggaatgatcc tcgaggaggg agcacctgaa gggacagtaa caaccatact gattaagaga
3061 acaactggag agctcatgcc attggcagcc cgcatgggta cccacgccac catgaaaatc
3121 cagggaagga tgatcggagg ccagatgggg atgctcctca caggatctaa tgctaagaac
3181 atggacctcg gcactgtccc cggtgactgt ggctgcccat atgtctacaa aagaggcaat
3241 gactgggtgg tcataggggt gcacaccgct gctgccagag gcggcaacac ggtaatatgt
3301 gccacccagg gtccagatgg tgaagccaca ctcgaggggg gagacaacca cgggacatac
3361 tgtggggcac caatcctggg tccagggagc gctccaaaac tcagcactaa aaccaaattc
3421 tggaggtcct ccaatgaacc actccccccc ggcacgtatg aacctgccta ccttggtgga
3481 aaagatccaa gagtcaaagg tggaccttca ctacaacaag tcatgaggga acaactcaag
3541 cctttcaccg ctcctcgggg gaaaccgccg agaccagcaa tcctggaagc cgccaaggaa
3601 accatctgca acgtgcttga gcagaccatt gacccacccc agaagtggtc atacacacaa
3661 gcatgtgcct ctctggacaa gacaacatca agtggacacc cccaccacaa aaagaaaaat
3721 gacaactgga acggtgaatc ctttactggc gttctggccg atcaagcatc aaaagcaaat
3781 ctcatgtttg aacaaagaaa acacatgcaa cctgtgtaca cagccgcgct caaggatgaa
3841 cttgttaaga ccagtaaaat ctatgacaac atcaaaaaga ggctcttgtg ggggtctgat
3901 cttggcacaa tgatccgctg tgcaaggtca tttggagggc tcatggatga aatgaaggcc
3961 aactgtgtga gacttcccgt tagggttgga atgaacatga atgaagatgg acccattatc
4021 tttgagaaac attcaaaata caaatatcat tatgatgctg actactccag atgggattca
4081 acccaacaaa ggcacatctt gggtgtcgca ttggaaatca tggttaggtt ctcagccgaa
4141 cctgagttgg cacaaatagt ggctgaggat cttttgtcgc ccagtgtggt ggatgttggc
4201 gacttcaaga tcacaataaa tgaaggtcta ccctcgggtg tcccctgcac atcccaatgg
4261 aattcaattg ctcactggct attaacactg tgtgccatgt cagaaatatc agggctatcc
4321 cctgacgtgg tgcaatcaaa ttcttgtttc tccttctatg gggatgacga gatagtcagc
4381 acagatataa aattggaccc acaaaaatta acagataagt tgagagagta tgggctaatt
4441 ccaacccgac ctgacaaaac tgaaggacca ctcatgatta aagagagttt ggagggtttg
4501 acatttctaa ggagagacat atgtagggac ccggctggct ggtatggtaa gctcgaccag
4561 tcatcaatca tgaggcaaat gtactggacc aaaggaccca accatgagga ccccaatgaa
4621 acaatgatcc cacactccca gagaccaata caactgatgt cccttctcgg tgaggctgcc
4681 cttcatgggc ccgcattcta caaaaagatt agcaaattag tcatcaccga gctcaaagaa
4741 ggtgggatgg atttttatgt gcccaggcaa gaaccaatgt tcaggtggat gagattctct
4801 gatttgagca cgtgggaggg cgatcgcaat cttgctcccg aaggtgtgaa tgaagatggc
4861 gtcgaatgac gccgctccat ctaatgatgg cgcagccggt ctcgtaccag agatcaacaa
4921 cgagacaatg gctttggaac cagttgcagg aggagcgatc gccgcccccc taactggaca
4981 aacaaatttc attgatccct ggattagaaa taattatgta caagcaccca atggtgaatt
5041 cactgtgtcc ccaaggaatt cccctggtga aattttgctc aatttagaat taggccctga
5101 acttaatcca ttcttggccc atttatctag aatgtataat ggatatgctg gtggcattga
5161 tgtccaagtc atcatggcgg gcaacgcctt caccgctgga aagatcatct tcgcagcagt
5221 gccacctcat tttcctattg ataacatcag ccccccacag ataaccatgt ttccccatat
5281 tataatagat gtgagaaccc ttgaacctgt gaacattccc ctgcctgatg tcagaaatag
5341 cttcttccat tacagccaga acaacgagcc ccgcatgaga ttgttggcca tgttgtatac
5401 ccctctcaga tcaaatggct ctgcagacga tgtcttcaca gtatcctgca gggtcctgac
5461 caagccttct gcagattttg aatttaatta tttggttccc ccaactgttg agtccagaac
5521 taaacccttc accataccaa tactcacaat tggagaaatg acaaattcaa gattccctgt
5581 ggccattgac atgctgcaca ccagccccac tgacaatttt attgttcagc cacaaaatgg
5641 caggtgcacc ctggatggtg agctgcaagg caccactcag ttggtcactt caaacatatg
5701 tgccttcagg gggtccatct cagggcacga gaacaatgga gatcaacatc agtggcactt
5761 cagtatcacc aaccccaatg gcactccatt tgacccaact gaagatgtgc ccgccccact
5821 tgggacccca gatttcaaag gtcaactcta cggggtcatc tcccaacgga atagagaagg
5881 aagccctggt aatggcaacc aaaaggccaa taggtcccat gagggagtga tttcaacagt
5941 tgcaccaaga ttcacaccaa aattagggtc ggtcatgatt ggcacttgga ccactgatga
6001 catacaagac caaccatcta gattcacccc agttgggctg aatgatgatg acaattacaa
6061 gcaatgggaa ttgccaaatt attctggggc tctcaccctc aatatggggt tggcaccttc
6121 tgtcttcccc acctaccctg gtgaacaact tcttttcttc cgctcctaca taccaatgaa
6181 gggagggtac ggcagtcctt acattgattg tcttataccc caagagtgga tttcccactt
6241 ttaccaggaa tcagcccctt cacaaacaga tgtggcttta atcaggtatg tgaaccccga
6301 cacaggacgc gtcctgttcg aggccaaatt gcacagacaa ggatacatca ccgtcgccaa
6361 gactggtgac agccccatca atgtgcccgc aaatggttac ttcaggtttg attcttgggt
6421 tagtcaattt tactctcttg cccccatggg aactgggaac gggcgcagaa ggattcagta
6481 atggctggag cttttatagc aggattggct ggtgacatgc tcacaaacac tgtagggtct
6541 ttagttaatg caggagctaa tgttatcaat cagaaagttg attttgagaa taataaatat
6601 ttgcaaaatg catcatttgc tcatgataaa gaaatgttga atgcacaagt tgaggcaaca
6661 aagaaactgc aggctgatat gattgccatt aagcaagggg tcttgaccgc tggcggcttt
6721 tcccccactg atgcagcccg cggggctatt aatgccccca tgacaaaagt tttggattgg
6781 aacggaacaa ggtactgggc acctaatgcc accaccacaa catcaatgtc aggtggtttc
6841 acaagccagg tcatgcacag gcccacacca aatcttaaga caaaccaggc ccccaaatcc
6901 ataccaagta gtgggtcttc ggtaagatcc aactcaaccc aactcaccag tctgagctcg
6961 cactcatccg gatcatctcg gaccagcggg tctacagcta tcagttccct accgtcttcc
7021 agcaggacta gggattgggt taaccagcaa aaccttaatt tggaaccaca tttgcctggg
7081 tctcttaaaa cagcttttgt cactccacca tctagtacag cctctagctc gggcacagtc
7141 tcaaccgtgc ctaagggtgt tttggactcc tggacatccg cgtttaacac acgcagacag
7201 ccgctattcg cacaccttcg tagaaggggg gagtcaa
//