Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MN453358 | GII.23 | |
|
|---|---|---|---|
| GII.P23 |
ORF1: 5..5095
ORF2: 5076..6707
ORF3: 6707..7471
LOCUS MN453358 7530 bp RNA linear VRL 18-SEP-2019
DEFINITION Norovirus GII isolate Hu/PE/2011/GII.23[P23]/Loreto5841, complete
genome.
ACCESSION MN453358
VERSION MN453358.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7530)
AUTHORS Chhabra,P., Browne,H., Kosek,M.N., Olortegui,M.P., Montmayeur,A.M.,
Tatusov,R.L. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (13-SEP-2019) 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. R10; SPAdes v. 3.6
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7530
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Loreto5841"
/isolate="Hu/PE/2011/GII.23[P23]/Loreto5841"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Peru"
/collection_date="25-Jun-2011"
/note="Amplicon sequencing: first 35 nt does represent
primer sequence;
genotype: GII.23[P23]"
gene 5..5095
/gene="ORF1"
CDS 5..5095
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QEP54808.1"
/translation="MKMASNDASAATAGTTSTNSEIHNKDGNTTSNLFANMTVGIKKA
LGARSKQSAPGAQTTNKNGRTTIPPIPPPPPNGEDIVIKYTKQEDTVSGVPTVSTADI
SPLHDTAYSVPPLDQREKVDAKEPLTGSILEMWDGEIYHYGLYVERGQVLGVHKPPAA
VSIARIELTPLSLYWRTVYTPPYLVAPDTLKKLHGETFPYAAFDNNCYSFCCWVLDLN
DSWLNRKFVSRTTGFYRPYQEWNRKPLPTMDEGKLKKVANVFLCGLSGLFTRPIKDLI
GKLKPLNILNIVTNCDWTFPGVVEAVILLAELFGIFWTPPDISAFVASLLGDYEMQGP
EDIATEIVPVILGGIGMVLGFTKEKIGRLLSSAASSLRACREIGNYGIEVVKLVMKWF
FPTKSEVNEMEMVRTIEDAVLDFEAIENNHMTALLKDKNSLATFLRALDVEEEKARRL
STKSASPDIIGTINALLARIAAARSLVHRAKEEMSSRMRPVVIMISGRPGIGKTHLAR
DLAKKMAATLSGDQRVGLVPRNGVDHWDAYKGERIVLWDDYGMSNPVTDALRLQELAD
TCPLTLNCDRIENKGKVFDSDTIIITTNLANPAPLDYVNFEACSRRIDFLVYADSPSV
DKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTPHSLIA
RATGLLHERLDEFDLQGQELPVYNFDQNKVAAFRKLAADNKYGLMDTLRAGNKLKEVK
SLDQFKEAVKDIRIKPCRIIYNSMAYDLDSNGSGRVNVKKVGDQKVQANNELNSALNK
LRGARIRYYVKCFQEMVYSLLQIAGAAFVTSRIAQRMNVNKLWTKPEKQQEASAGPPT
PPTEEWTITPMDTIQEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERQGKYS
IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRREERATLGLVTGS
EIRKRNPDDFKPKGKLWADDDRSVNYNERIDFEAPPSLWSRIVNFGSGWGFWVSSNLF
ITSTHVIPQNMSEAFGVPISQIQIHRSGEFCKMRFPKAIRPDVSGMILEEGAPEGTVV
TILIKRPTGELMPLAARMGTHATMKIQGRMIGGQMGMLLTGSNAKNMDLGTVPGDCGC
PYVYKRGNDWVVIGVHTAAARGGNTVICATQGPDGEATLEGGDNHGTYCGAPILGPGN
APKLSTKTKFWRSSNTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTAPRGK
PPRPAVLEAAKETICNVLEQTIEPPQKWSYAQACASLDKTTSSGHPHHKKKNDNWNGE
SFIGVLADQASRANLMYEQGKHMQPVYTGALKDELVKTSKIYETIKKRLLWGSDLGTM
IRCARSFGGLMDEMKANCVNLPVRVGMNMNEDGPIIFEKHSKYRYHYDADYSRWDSTQ
QRCVLGAALDIMVRYSAEPELAQIVAEDLLSPSVMDVGDFKITINEGLPSGVPCTSQW
NSIAHWLLTLCAMSEVSGLSPDVVQSNSCFSFYGDDEIVSTDIKLDPQKLTDKLREYG
LIPTRPDKTEGPLIIRESLEGLTFLRRDVCRDPAGWYGKLDQSSIMRQLYWTKGPNHE
DPNETMIPHSQRPVQLMSLLGEAALHGPTFYKRVSKLVITELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPESVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/product="p48"
mat_peptide 1001..2098
/gene="ORF1"
/product="NTPase"
mat_peptide 2099..2620
/gene="ORF1"
/product="p22"
mat_peptide 2621..3019
/gene="ORF1"
/product="VPg"
mat_peptide 3020..3562
/gene="ORF1"
/product="Pro"
mat_peptide 3563..5092
/gene="ORF1"
/product="RdRp"
gene 5076..6707
/gene="ORF2"
CDS 5076..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QEP54809.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNETMALEPVAGGAIAAPLTGQ
TNFIDPWIRGNYVQAPNGEFTVSPRNSPGEILLNLELGPELNPFLSHLSRMYNGYAGG
IDVQVIMAGNAFTAGKIIFAAIPPHFPVENLSPPQITMFPHIIVDVRTLEPINIPVPD
VRNNFFHYNQNNESRMRLVAMLYTPLRSNGSAEDVFTVSCRVLTKPSADFEFNYLVPP
TVESRTKPFTIPILTIGEMTNSRFPVPIDMLHTSPTENIVVQPQNGRCTIDGELLGTT
QLITSNICSFRGSISGHEGNDDEHLWHFNITNPNGTPFDPTEDVPAPLGTPDFRGQLY
GVISQRDREGTPSANNQKANRSHQGVISTISPKFVPKLGSVMIGTWTTDDIKNQPSKF
APIGLNDDDNFKQWELPNYSGALTLNMGLAPSVFPTYPGEQILFFRSYLPMKGGYGSP
FIDCLVPQEWVAHFYQESAPAQTDVALIRYVNPETGRVLFEAKLHRQGFITVSKSGDS
PINVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ"
gene 6707..7471
/gene="ORF3"
CDS 6707..7471
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QEP54810.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQKIDFENNKYFQNA
SFAHDKDMLNAQVEATKKLQADMIAIKQGVLVAGGFSPTDAARGAINAPMTRALDWNG
TRYWAPNATSTTSMSGGFTGQVSHRTTPNFKTNQAPKPPPSSGSSVRSNSTQLTSLSS
HSSGSSRSSGSTMVSSLPSSSRTRDWVNQQNLNLEPHLPGSLRTAFVTPPSSSASSSG
TVSTVPKGVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgcgacc gctggcacaa ccagcacaaa
61 cagtgaaatt cacaacaaag atggaaatac aacatcaaac ctatttgcca acatgactgt
121 tggcataaag aaggctctag gggcgagatc aaaacagtcc gcccctggag cccaaacaac
181 taacaagaat gggagaacca ccatccctcc catacccccc ccacccccaa atggtgagga
241 catagtcatc aagtatacca aacaagagga tacagtcagt ggagtgccca ccgtctccac
301 tgcagacata tccccattgc atgacaccgc atatagtgtc ccccccttgg accagaggga
361 aaaggtggac gcaaaagaac ccctaactgg gtcaatactt gagatgtggg atggtgagat
421 ctaccattac gggctctatg tggagagagg gcaagtcctc ggtgtgcaca aaccaccagc
481 tgctgtgagc attgcacgca tcgagctgac ccccctctct ctatactgga gaacagttta
541 cacacctccc tacctggtag ctcctgacac ccttaagaag ctccatggtg agacattccc
601 ctacgcagca tttgataaca actgctactc attttgttgt tgggttctgg acctgaacga
661 ctcgtggctc aatagaaaat tcgtgtcaag gaccacaggc ttctacagac cctaccagga
721 gtggaacagg aaaccattgc caaccatgga cgaaggaaag cttaagaagg tggccaacgt
781 cttcctgtgt ggcttgtctg ggcttttcac caggcccatc aaagatctca taggcaaact
841 gaaaccactg aacattctta acattgtcac caattgtgat tggacgttcc cgggagtcgt
901 agaggcggtc atcctcctcg cagagctctt tgggatcttc tggacaccac cagacatatc
961 tgccttcgtc gcctctctgt taggtgacta tgagatgcaa ggccccgagg acattgcgac
1021 cgaaatagtc ccagtcattc taggtggtat tggcatggta cttggtttca ctaaagagaa
1081 gatcggccgg ttgctgagtt ccgcggcatc atcactcagg gcctgcaggg aaatcggcaa
1141 ctatgggata gaggtggtaa aattggtgat gaaatggttc tttccaacca aaagtgaggt
1201 caatgagatg gaaatggtca gaacaataga ggacgcagtg ctcgactttg aggcaattga
1261 aaacaatcac atgacagctc tactcaaaga caaaaatagt ctggccacct tcctcagggc
1321 actggatgtg gaagaagaga aagcgcggag attatcaacc aaatccgcgt cccccgacat
1381 aatcggcact ataaatgcac tcctggcgag aattgccgct gctaggtcac tggtgcacag
1441 ggctaaggaa gagatgtcat caaggatgcg tcctgttgtc atcatgatat ccggacgacc
1501 tgggataggg aaaacccatc tggcccgcga cctagctaag aagatggcgg ccactctgtc
1561 aggtgaccag agagtgggcc tggtcccaag gaatggtgtt gaccattggg atgcatacaa
1621 gggagaaagg atcgtcctgt gggatgatta cggtatgagc aaccccgtga cagacgccct
1681 ccgactccag gaactcgccg atacatgccc cctgacactc aactgtgata ggatagagaa
1741 taaaggaaag gtctttgaca gtgacaccat aatcatcact actaacctgg ccaacccggc
1801 ccccctggac tatgtgaact ttgaagcttg ctcacgccgc atagatttcc tcgtttatgc
1861 ggactctcct tcagttgata aggcaaagag agacttccca ggccaaccag acatgtggaa
1921 agacgccttc aaaccagatt tctcacacat aaagctacaa ctggcaccac agggaggatt
1981 tgacaagaat gggaacaccc cacatgggaa gggcgtcatg aaaacactaa ccccacactc
2041 cctcatagcc cgtgccactg gtttactcca tgagagatta gatgaatttg acttacaggg
2101 tcaagaattg ccagtctaca actttgacca gaacaaggtg gccgctttcc ggaaactagc
2161 ggccgacaac aagtatggtc tcatggacac tttgagggca ggcaacaaac tgaaggaggt
2221 taagagtcta gaccaattca aggaagcggt gaaagacatc cgcataaagc cttgcaggat
2281 aatctacaac tcaatggctt atgacctgga ttcaaatggg tcaggcagag tcaatgttaa
2341 gaaagtggga gaccaaaagg tccaggccaa caatgaactc aactccgcac tcaacaaact
2401 gcgcggggct agaatcagat actatgtgaa gtgcttccag gaaatggtct actccctcct
2461 ccagattgct ggtgcggcct tcgttacatc aagaatagca caaagaatga atgtcaacaa
2521 gctgtggaca aaaccagaaa aacaacagga ggcctctgca gggcccccca cccccccaac
2581 tgaagagtgg accataacac caatggacac gatccaggaa ggtaagaagg gcaagaacaa
2641 aagtggtagg ggtaagaaac acactgcatt ctctagtaag ggccttagtg atgaggagta
2701 tgatgagtac aagagaatca gggaggagcg ccaagggaag tactccatag aagaatacct
2761 ccaggacagg gaccggtact atgaagaatt ggccatagcc aaagcaacag aggaggactt
2821 ctgtgaagag gaggagatca agataaggca aagaattttc cgcccaacca ggaaacagcg
2881 tagggaggag agagccactc taggccttgt cacaggcagt gaaattagaa agaggaaccc
2941 cgatgatttc aaaccaaaag gaaaactgtg ggctgatgat gaccgtagtg tcaactacaa
3001 tgaaaggata gactttgaag ctcctcccag cctctggtcc agaatagtca acttcggttc
3061 gggttggggc ttctgggtct catcaaattt gttcatcacc tccacacacg tcatcccaca
3121 aaacatgtct gaagctttcg gagtgccaat aagccagatc caaatacata ggagtggaga
3181 gttctgcaaa atgaggttcc caaaggccat caggcccgat gtctctggca tgattcttga
3241 ggaaggcgcg cctgaaggca cggtggtgac catattgatc aaaagaccaa ctggtgaact
3301 catgccattg gcagctcgca tgggcaccca cgccaccatg aaaatacagg ggaggatgat
3361 tggaggtcaa atggggatgc ttctcacagg atccaacgcc aaaaacatgg accttggcac
3421 cgtgcctggt gactgtggct gcccttatgt ctacaaaaga ggcaatgatt gggtagttat
3481 cggggtgcac accgccgccg ccaggggtgg caacacggtg atctgtgcca ctcaggggcc
3541 agatggtgaa gccacacttg agggtggcga caaccatgga acctattgtg gcgcgccaat
3601 attaggacct ggaaacgccc cgaaactcag caccaagacc aaattctgga ggtcctccaa
3661 cactccgctt ccccctggca cttacgaacc agcctacctc ggtggtaagg acccaagggt
3721 caagggcggc ccatcactac aacaagtcat gagagagcaa ctcaagccct tcactgcccc
3781 acgtggaaaa ccaccaaggc cagcggtttt ggaggccgcc aaggaaacca tctgcaatgt
3841 gctggagcaa accattgaac cgccccaaaa gtggtcctat gcacaggctt gtgcttccct
3901 agacaaaaca acctcaagtg gccaccccca ccacaagaag aaaaatgaca attggaacgg
3961 ggaatccttc attggtgttc tggctgatca ggcttcaaga gcaaacctca tgtatgagca
4021 agggaaacac atgcagcctg tgtacacagg cgcgctcaaa gatgagcttg tcaaaaccag
4081 caagatctat gaaaccatta agaagagact cttgtggggt tcagacctcg gcacaatgat
4141 acgctgtgcc aggtcatttg gtggtctcat ggatgaaatg aaggcaaact gtgtgaacct
4201 accagtcaga gttggcatga atatgaatga agatggtccc ataatctttg aaaagcattc
4261 aaagtacaga tatcactatg atgctgacta ttccaggtgg gactcaacac aacagagatg
4321 tgtcctgggt gctgcacttg atataatggt tagatactca gccgaaccag aactggcaca
4381 aatcgtggct gaggacttgc tgtcgcctag cgtcatggac gttggcgact ttaaaatcac
4441 cataaatgag ggcttaccat cgggagtccc gtgcacatcc cagtggaact caatagctca
4501 ttggctgtta acactctgtg ccatgtcaga agtctcagga ctgtcaccag atgtggtaca
4561 gtcaaattca tgcttctcct tctatgggga tgatgaaata gtcagcactg acatcaaatt
4621 ggacccccaa aaactgactg acaagttgag agagtatggc ttaattccaa ctaggcccga
4681 caaaacagaa ggaccactta taatcagaga gagtctagaa ggcctaacat tcttaaggag
4741 ggatgtgtgc agagacccag cagggtggta tggcaaactt gaccaatcat caatcatgag
4801 acagttatac tggacaaaag gacccaacca tgaggacccc aatgaaacaa tgatcccaca
4861 ttcccagagg ccagtgcaat tgatgtccct gcttggtgag gcggccctac acggaccgac
4921 attctacaag agagttagca agttggtcat cactgaatta aaggaaggtg gaatggattt
4981 ctatgtgccc agacaagaac ctatgtttag atggatgaga ttctctgact tgagcacgtg
5041 ggagggcgat cgcaatctgg ctcccgaaag tgtgaatgaa gatggcgtcg aatgacgccg
5101 ctccatctaa tgatggtgca gccggtctcg taccagagat caacaacgag acaatggctt
5161 tggaaccagt ggcaggagga gcaattgcag ccccactaac tggacaaaca aatttcattg
5221 atccctggat tagaggtaat tatgtgcaag caccaaatgg tgaatttaca gtgtccccca
5281 gaaattcgcc cggtgaaatt ttgcttaatt tagaattagg ccctgaactc aacccattct
5341 tgtcccatct atctagaatg tacaatgggt atgctggcgg tattgatgtc caagtcatca
5401 tggcaggcaa tgccttcacc gctggtaaga tcatctttgc agcaatacct ccccatttcc
5461 ccgtggaaaa tcttagtccc cctcagatca ctatgttccc tcatattata gtggatgtca
5521 ggacccttga acccataaat atccctgtac cagatgttag gaacaacttc ttccattata
5581 atcaaaacaa tgagtctcgc atgagactgg tggccatgtt gtatacccct cttaggtcta
5641 acgggtctgc tgaagatgtt ttcacagtgt catgtagggt cttaacaaaa ccatctgcag
5701 actttgaatt taattatcta gtccccccaa ctgtagagtc aaggactaaa cccttcacaa
5761 taccaatact cacaattggg gaaatgacaa attcaagatt cccagtgcct attgacatgc
5821 tccatactag tccaacagaa aacattgttg ttcaaccaca aaatggcagg tgcaccatag
5881 atggtgagtt gcttggcacc actcaactga tcacttccaa tatctgttca ttcagaggat
5941 ccatctcagg gcatgaaggc aatgatgacg aacacctgtg gcacttcaac atcacaaacc
6001 ccaatggcac tccatttgac cccactgaag atgtgcctgc ccccctcgga accccagatt
6061 tcaggggtca attgtacggt gtcatctccc agcgagacag agagggaaca ccctcggcga
6121 acaatcagaa ggcaaacagg tcccaccagg gagtgatttc aacaatctca ccaaaatttg
6181 tccctaagtt aggttcagtc atgattggca catggactac tgatgatatc aagaaccagc
6241 catccaagtt cgccccaatt ggcctcaatg atgatgataa ttttaaacaa tgggaactgc
6301 caaattattc tggggcgctc accctcaaca tggggttggc acctagtgtt ttccccacct
6361 atcctggtga acaaatcctt ttcttccgct cctatctgcc aatgaaggga gggtacggta
6421 gtccatttat tgactgccta gtacctcaag aatgggtcgc tcacttctac caggagtcag
6481 cacccgcaca aacagatgtg gccctaatca ggtatgtaaa ccccgaaaca ggacgtgtcc
6541 ttttcgaggc caaattgcac agacaggggt tcattaccgt ttccaagagc ggcgacagcc
6601 ccatcaatgt gcctgccaat ggttatttta ggtttgattc ttgggttaat cagttttact
6661 ctcttgcccc catgggaact gggaacgggc gcagaaggat tcagtaatgg ctggagcttt
6721 tatagcagga ttggctggtg acatgctcac aaacaccgta gggtctctag ttaatgcagg
6781 agctaatgct attaatcaga aaattgattt tgagaataat aaatatttcc aaaatgcatc
6841 atttgcccat gataaggata tgctgaatgc acaggttgag gcgaccaaga aacttcaggc
6901 tgacatgatt gccatcaagc aaggggtatt agtcgcgggc ggcttttccc ctactgatgc
6961 agctcgggga gcaatcaacg cccccatgac aagagctcta gattggaatg gaacaaggta
7021 ctgggcgcca aatgccacct ccaccacttc aatgtcaggt ggcttcacag gacaggtttc
7081 gcacaggacc acaccaaatt ttaaaaccaa ccaggccccc aagcccccac ctagtagtgg
7141 gtcttcagta agatccaact caacccaact cactagtctg agctcccact cctctgggtc
7201 atcccgatcc agcggatcaa caatggttag ctctttgcct tcttctagca ggactaggga
7261 ttgggtcaat caacaaaatc ttaatttgga accacacttg cctgggtctc tcagaacagc
7321 ttttgtcact ccaccatcta gttcagcctc tagttcaggc acagtctcaa ccgtgcccaa
7381 gggtgttttg gactcctgga catctgcatt caacacacgc agacagccgc tttttgcaca
7441 ccttcgcaga aggggggagt caaatgttta gtgaaaagat tattttaaat ttgatttaat
7501 ttgaatttga ttggcatctt ttaaaaaaaa
//