Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| KU306738 | GII.26 | |
|
|---|---|---|---|
| GII.P26 |
ORF1: 1..4875
ORF2: 4856..6484
ORF3: 6484..7233
LOCUS KU306738 7233 bp RNA linear VRL 16-JAN-2018
DEFINITION Norovirus GII strain Hu/NI/2005/GII.PNA3-GII.NA3/Leon4509
polyprotein gene, partial cds; major capsid protein gene, complete
cds; and minor structural protein gene, partial cds.
ACCESSION KU306738
VERSION KU306738.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7233)
AUTHORS Collins,N., Bucardo-Rivera,F., Nordgren,J., Svensson,L., Aswath,K.
and Vinje,J.
TITLE Near full-genome sequences of several new norovirus GII genotypes
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7233)
AUTHORS Collins,N., Bucardo-Rivera,F., Nordgren,J., Svensson,L., Aswath,K.
and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (15-DEC-2015) NCIRD/DVD/GRVLB, CDC, 1600 Clifton Rd NE,
Atlanta, GA 30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. R8
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7233
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/NI/2005/GII.PNA3-GII.NA3/Leon4509"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Nicaragua"
/note="genotype: GII.PNA3-GIINA3"
CDS <1..4875
/note="nonstructural protein; ORF1"
/codon_start=1
/product="polyprotein"
/protein_id="AMS03989.1"
/translation="RHSNGEDIVIKYTKQGDTVSGVPTVSTADTSPLHDTAYSVPPLD
QREKTDAKEPLTGSIIEMWDGEIYHYGLYVERGLVLGVHKPPAAVSLARIELSPLSLY
WRTVYTPPYLVAPDTLKKLHGETFPYTAFENNCYTFCCWVLDLNDSWLNRKFVSRTTG
FYRPYQDWNRKPLPTMDEGKLKKVANVFLCALSGLITRPIKDLIGKLKPLNILNIIAN
CDWTFSGVVESVILFAELFGIFWTPPDISAFIASLLGDYEMQGPEDIASEIVPVILGG
IGMVLGFTKERIGRLLSSAASSLRACREIGNYGIEVVKLVMKWFFPTKNEVNEMEMVR
TIEDAVLDFEAIQNNHMTALLKDKNSLTTFLRALDLEEEKARKLSTKSASPDIVGTIN
ALLARIAAARSLVHRAKEEMSSRMRPVVIMISGRPGIGKTHLARDLAKKMAATLSGDQ
RVGLVPRNGVDHWDAYKGERIVLWDDYGMSNPVTDALRLQELADTCPLTLNCDRIENK
GKVFDSDTLIITTNLPNPAPMDYVNFEACSRRIDFLVYADSPSVDKAKRDFPGQPDMW
KDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKSLTIHSLIARAIGLLHERLDEFD
LQGPDLPVYNFDQNKVAAFRKLAADNKYGLMDTLRAGNKLKEVKTLEQFKEAVKDIRI
KPCRIIYNSLAYDLDSNGSGKVNIKKVGDQRVQANNELNSALNKLRGARIRYYVKCFQ
EMIYSILQIAGAAFVTSRMAQRMNVNKMWSKPEKQMGTLTEPPVPPDEEWTIVPVDTV
QEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERQGKYSIEEYLQDRDRYYEE
LAIAKATEENFCEEEEVKIRQRIFRPTKKQRREERATLGLVTGSEIRKRNPDDFKPKG
KLWADDDRSVNYNERIDFEAPPSLWSRIVNFGSGWGFWVSSNLFITSTHVIPPNMTEA
FGVPINQIQIHRSGEFCKMRFPKAIRPDVSGMILEEGAPEGTVVTILIKRTTGELMPL
AARMGTHATMKVQGRMIGGQMGMLLTGSNAKNMDLGTVPGDCGCPYVYKRGNDWVTIG
VHTAAARGGNTVICATQGPDGEATLEGGENHGTYCGAPILGPGSAPKLSTKTKFWRSS
NVSLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTAPRGKPPKPAVLEAAKETI
CNVLEQTIEPPQKWSYAQACASLDKTTSSGHPHHKKKNDNWNGESFTGVLADQASKAN
LMFEQGKHMQPVYTGALKDELVKTSKIYENIKKRLLWGSDLGTMIRCARSFGGLMDEM
KANCVNLPVRVGMNMNEDGPIIFEKHSKYRYHYDADYSRWDSTQQRCVLGAALEIMVR
FSAEPELAQIVAEDLLSPSVMDVGDFKITINEGLPSGVPCTSQWNSITHWLLTLCALS
EVSGLSPDVVQSNSCFSFYGDDEIVSTDIKLDPQKLTDKLREYGLIPTRPDKTEGPLI
IKESLEGLTFLRRDVCRDPVGWYGKLDQSSIMRQLYWTKGPNHEDPSETMIPHSQRPV
QLMSLLGEAALHGPAFYKKVSKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGD
RNLAPEGVNEDGVE"
CDS 4856..6484
/note="VP1; ORF2"
/codon_start=1
/product="major capsid protein"
/protein_id="AMS03990.1"
/translation="MKMASNDAAPSNDGASSLVPEINNETMALEPVAGGAIAAPLTGQ
TNFIDPWIRNNYVQAPNGEFTISPRNSPGEILLNLELGPELNPFLAHLARMYNGYAGG
VDVQVIMAGNAFTAGKVIFAAVPPHFPVESLSPPQITMFPHIIVDVRTLEPINIPIPD
VRNNFFHYNQNNEPRMRLVAMLYTPLRSNGSADDVFTVSCRVLTKPSADFEFNYLVPP
TVESRTKPFTIPILTIGEMTNSRFPVAIDMLYTSPTENLVVQPQNGRCTLEGELLGTT
QLVTPNICSLRGAITGHEGNDDNHKWHMTVTNPNGSAFDPTEDVPAPLGTPDFIGDVY
GVLSQRNRNIESGQTAPANRSHEAVISTRSNKFTPKLGSVMIATWNTNDVENQPTKFT
PVGLENPGSFHQWELPNYSGALTLNMGLAPPVFPTYPGEQLLFFRSYIPLKGGFGNSI
IDCLVPQEWIQHFYQESAPSQTDVALIRYVNPETGRVLFEAKLHRQGFITVAKTGDSP
INVPANGYFRFDSWVNSFYSLAPMGTGNGRRRIQ"
CDS 6484..>7233
/note="VP2; ORF3"
/codon_start=1
/product="minor structural protein"
/protein_id="AMS03991.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVSSGANAINQKIDFENNKYLQNA
SFNHDKEMLQAQVQATKQLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWSG
TRYWAPNATATTSMSGGFTGQVVHRTTPDFKTSQAPKSVPSSGSSIRSNSTQLTSLGS
HSSGSSRSSGSTVTSSLPSSSRTREWVKQQSLNLEPHMPGSHRIAFVTPPSSTASSSG
TVSTVPKGVLDSWSPAFNTRRQPLFAYLHRRG"
ORIGIN
1 cgacactcaa atggtgagga tatagtaatc aagtatacca aacaagggga cacggtcagt
61 ggagtgccca ccgtctccac tgcagacaca tcccctctac atgacactgc atacagtgtc
121 ccccccctgg atcaaaggga aaagacagac gcaaaggaac ccctaaccgg ctcaataatt
181 gaaatgtggg acggtgagat ctaccattat gggctctatg tggagagagg attggtcctt
241 ggtgtacata agccaccggc agccgtgagc ctcgcgcgca tcgagctgtc ccccctttcc
301 ctatattgga gaacagttta cacaccccct tacttggttg ctcctgacac ccttaagaag
361 ctccatggtg aaaccttccc ctacacggca tttgagaaca actgctacac attctgctgt
421 tgggttttgg acctgaatga ttcttggctc aacagaaagt tcgtgtcgag aaccacaggc
481 ttctatagac cctatcaaga ttggaacaga aaaccattgc caaccatgga cgaggggaaa
541 ctcaagaagg tggccaatgt gttcctgtgc gctctgtctg ggctgatcac cagacccatc
601 aaggacctca taggtaaact gaaaccatta aacatcctca acatcatcgc caattgtgac
661 tggaccttct ctggtgttgt agagtcagtg attctctttg cagaactctt tggcatcttt
721 tggacaccac cagatatatc agctttcatt gcatccttgt tgggtgacta tgaaatgcaa
781 ggccctgaag acatcgcatc cgagatcgtc ccagtcatcc ttggcggcat tggcatggtt
841 cttggcttca ccaaagaaag aattggccgg ttgctgagct ccgcggcatc atcccttaga
901 gcatgcaggg agatcggcaa ctacggaata gaagtggtaa aattggtgat gaaatggttc
961 ttcccgacca aaaatgaagt caatgaaatg gagatggtca gaacaataga agatgcagtg
1021 cttgacttcg aggcaataca aaacaaccac atgacagctt tgctcaaaga caagaatagt
1081 ctgaccacct ttctcagagc attagacttg gaagaggaaa aggcgcggaa actgtcaact
1141 aaatccgctt cacccgacat agtcggcacc ataaatgcac tcttggcgag aatcgccgct
1201 gccagatctc tagtacacag ggctaaggaa gagatgtcat ctaggatgcg tcctgttgtc
1261 atcatgatat ctggacgacc tgggataggg aagacccact tggcacgcga tctggccaaa
1321 aagatggcag ccactctatc aggtgaccaa agagttggcc ttgtcccaag aaacggtgtc
1381 gaccactggg acgcatataa gggagagagg atcgtcctct gggatgacta cggcatgagc
1441 aaccccgtga cagatgccct ccggctccaa gaactcgccg acacatgccc cttaacactc
1501 aactgtgata gaatagaaaa taaggggaaa gtctttgaca gtgacactct gattatcacc
1561 accaatttgc ccaatccggc ccccatggac tatgtgaatt ttgaagcttg ctcacgccgc
1621 atagacttcc ttgtctacgc ggattccccc tcagttgaca aggcaaaaag agactttccg
1681 ggccaaccgg acatgtggaa agacgccttc aaaccagact tctcacatat aaagttacaa
1741 ttggcaccac aaggggggtt tgacaagaat ggaaacactc cgcatggaaa gggcgtcatg
1801 aagtcactga ccatacactc cctcatagcc cgcgccattg gcctactcca tgagaggttg
1861 gacgaatttg atctacaagg cccagacttg ccagtgtaca actttgacca gaacaaggtg
1921 gccgcattcc gaaaactcgc ggccgataac aagtatggac tcatggacac cttgagagca
1981 ggcaacaaat tgaaggaagt caaaacccta gaacaattca aggaagcagt gaaggacata
2041 cgaataaaac cctgtaggat aatctacaat tccctggcct atgacttaga ttcaaatggg
2101 tcagggaaag tcaatatcaa gaaggtaggg gatcagaggg tccaagccaa caatgaactc
2161 aactctgcgc tcaacaaact gcgcggggcc agaatcagat attacgtgaa atgcttccaa
2221 gaaatgatct actcaattct ccagattgcc ggcgcggctt ttgttacatc aaggatggca
2281 caaaggatga atgtcaacaa aatgtggtcc aaaccagaaa aacaaatggg caccctcacg
2341 gagccacctg tccctccgga tgaagaatgg accatagtac cggtggacac agtccaggaa
2401 ggcaagaaag gcaaaaacaa gagtggcaga ggcaagaaac acactgcttt ttctagtaag
2461 ggccttagtg atgaggaata tgatgagtac aaaaggatca gagaagaacg ccaagggaaa
2521 tactccatag aagaatacct ccaggacagg gaccggtatt atgaggaatt ggccatagcc
2581 aaagcaacag aagaaaactt ttgtgaagag gaggaagtca aaataaggca gagaattttt
2641 cgcccgacca agaaacaacg tagggaggag agggcaactt tgggtcttgt cacaggtagt
2701 gagataagga agaggaaccc tgatgatttc aagccaaaag gaaagctgtg ggctgatgat
2761 gaccgcagtg ttaattataa tgagagaata gattttgaag cccctcccag tctctggtcc
2821 agaatagtca acttcggatc aggctggggc ttttgggtct cctccaacct gttcattact
2881 tccacacatg tcatcccacc aaacatgact gaagcctttg gagtgccaat aaaccagata
2941 cagatacaca ggagtgggga gttctgtaag atgagattcc caaaagccat cagacccgat
3001 gtatctggca tgatccttga agaaggcgcc cctgaaggaa cggttgtgac catactgatc
3061 aaaagaacaa ctggtgaact catgccattg gcagctcgca tgggcaccca tgccaccatg
3121 aaggtacaag gcagaatgat tggaggccag atgggaatgc tcctcacagg gtccaatgcc
3181 aaaaacatgg atcttggcac cgtccccggt gattgtggtt gcccttacgt ttacaagagg
3241 ggcaatgatt gggttaccat cggggtccac actgccgccg ctaggggcgg taacacggtg
3301 atctgtgcta cccagggacc agatggtgaa gctacccttg aggggggaga aaaccatgga
3361 acatactgtg gtgcgcccat attaggacca gggagcgccc caaagctcag caccaagact
3421 aaattctgga gatcttccaa tgtctcactt ccccctggca catatgaacc tgcctatctg
3481 ggtggtaaag acccaagggt taagggcggc ccatccctgc aacaggtcat gagggaacaa
3541 ctcaaacctt tcactgcccc tcgcgggaaa ccgccgaaac cagcggtttt ggaggccgca
3601 aaggaaacca tttgtaatgt attggaacaa accattgaac caccccagaa gtggtcctac
3661 gcgcaagcct gcgcatccct agacaaaaca acttcaagtg gtcaccccca tcacaagaag
3721 aaaaatgaca attggaatgg tgaatctttt actggtgttc tggccgatca ggcgtcaaag
3781 gccaacctca tgttcgagca aggaaaacac atgcagcctg tgtatacagg agcactcaaa
3841 gatgaacttg tcaagaccag caaaatttat gagaacatta aaaagaggct tctgtggggt
3901 tcagacctgg gtacgatgat acgctgtgcc aggtcattcg gtggtctcat ggatgagatg
3961 aaggcaaact gcgtgaatct accagtcagg gttggcatga acatgaatga ggatgggccc
4021 ataatctttg aaaaacattc aaaatacagg taccattatg atgctgacta ttccaggtgg
4081 gattcaacac aacaaaggtg tgtcttgggt gctgcacttg aaattatggt caggttctca
4141 gccgaacctg aattggcaca aattgtggct gaggacctct tgtcacccag cgtcatggac
4201 gttggcgact tcaaaatcac cataaacgag ggtttgccct ctggggtccc gtgcacatct
4261 caatggaatt caattactca ttggctacta acattgtgtg ccttgtcaga agtctcaggg
4321 ctgtcaccag atgtggtaca atcaaactca tgcttctcct tttacgggga tgatgagata
4381 gttagcacag acattaaatt ggatccccag aaattaacag acaaactaag agaatatggc
4441 ttgatcccaa ccagacctga caagacagaa ggccctctca taatcaagga aagcttggag
4501 ggcctaacct tcctgagaag ggatgtgtgc agagacccag ttggatggta tggcaagctt
4561 gaccaatcat caatcatgag gcaactatat tggaccaaag gacccaacca tgaagacccc
4621 agcgaaacga tgatcccaca ctctcagaga cctgtgcaat tgatgtccct gcttggtgaa
4681 gcagccctac atggaccagc attctacaaa aaggttagca aattggtcat cactgaactc
4741 aaagaaggtg gaatggattt ctatgtaccc aggcaagaac ccatgtttag gtggatgaga
4801 ttctctgatc tgagcacgtg ggagggcgat cgcaatctgg ctcccgaagg tgtgaatgaa
4861 gatggcgtcg aatgacgccg ctccatctaa tgatggtgca tccagtctcg taccagagat
4921 caacaacgag acaatggctt tggaaccggt ggcgggagga gctatcgcag ccccccttac
4981 cgggcagaca aattttattg atccctggat tagaaataat tatgtgcaag cacccaatgg
5041 tgagtttaca atatccccta gaaattctcc tggtgaaatt ttacttaatt tggaattggg
5101 ccctgaactt aacccattct tagcccacct ggccagaatg tacaatgggt atgctggagg
5161 tgttgatgtc caggtcatca tggcaggcaa tgccttcact gccggtaaag tcatctttgc
5221 tgcagtgcca ccccacttcc cagttgagag tcttagcccc ccccaaatta ctatgtttcc
5281 ccatattata gtggatgtca gaacccttga acctataaac atccccatac ctgatgttag
5341 gaacaatttc ttccattaca atcagaacaa tgagccccgt atgaggttgg tagccatgtt
5401 gtacaccccc cttagatcaa atggttctgc tgatgatgtt ttcacagtgt catgcagggt
5461 tctaacaaag ccttcagcag attttgagtt caattatttg gtccccccga cagtcgaatc
5521 aagaactaaa cccttcacaa taccaatact cacaattgga gagatgacaa attcaagatt
5581 ccctgtggcc attgacatgc tgtacaccag cccaactgaa aacctggtgg tccaacccca
5641 gaatggcagg tgtacacttg agggtgagtt attaggcaca acacagttgg tgactccaaa
5701 catctgctcc ctccgtggtg caatcactgg acatgagggc aatgatgaca atcacaagtg
5761 gcacatgacg gtcacaaacc ccaatggctc cgcttttgat ccaacagaag atgtgcctgc
5821 tcccctaggc accccagact tcataggtga tgtgtacgga gtgctctccc aaaggaatag
5881 aaacatagaa tctggccaaa ctgctcccgc aaacaggtcc catgaagctg ttatttccac
5941 aaggagcaac aaattcacac caaaattggg ctcagtaatg attgccactt ggaacactaa
6001 tgatgttgaa aaccaaccca ccaaattcac accagtagga cttgaaaatc ctggttcttt
6061 ccaccagtgg gagttgccaa attactcagg agctttaacc ctcaacatgg ggcttgcacc
6121 acctgtgttc ccaacctacc ccggcgagca gcttctcttc ttccgctcgt acatccccct
6181 taagggtggg tttgggaatt caataataga ttgtcttgtg ccacaagagt ggattcaaca
6241 tttctatcaa gaatcagccc cctcacaaac agatgtggct ttaatcaggt atgtcaaccc
6301 cgaaacagga cgcgtccttt tcgaggccaa attgcacaga caagggttca tcaccgtcgc
6361 caagactggt gacagcccca tcaatgtacc tgccaatggc tattttagat ttgactcttg
6421 ggttaattca ttttattcac ttgcccccat gggaactggg aatgggcgca gaaggattca
6481 gtaatggcag gagcttttat agcaggattg gctggtgaca tgctcacaaa cactgtaggg
6541 tctttagtta gttcaggtgc taatgctatc aatcagaaaa ttgattttga aaataataag
6601 tatttacaaa atgcatcttt taatcatgat aaggaaatgt tgcaagcaca ggttcaggca
6661 acaaaacaac tgcaggctga catgattgcc atcaagcaag gggttctgac cgctggcggc
6721 ttttccccta ctgatgcggc acgcggggca atcaacgccc ccatgacaaa agtcttggat
6781 tggagtggaa caaggtactg ggcaccaaac gccactgcca caacctcaat gtcaggtggc
6841 tttacaggac aagttgtgca ccggaccaca ccagatttta aaacaagcca ggcccccaag
6901 tctgtaccca gtagtgggtc ctcaatcaga tcaaactcaa cccaactcac cagtctaggc
6961 tcacattcat ccgggtcgtc tcgatccagt gggtccacag ttactagttc cctaccatct
7021 tccagtagga ctagggaatg ggtcaagcaa caaagtctca atttggaacc acatatgcct
7081 gggtctcaca gaatagcttt tgtcactcca ccatctagca cagcctctag ttcaggcaca
7141 gtctcaaccg tgcccaaagg tgttttggac tcctggtcac ctgcgtttaa cacacgcaga
7201 cagccgctct tcgcgtacct tcatagaagg ggg
//