Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| KT290889 | GII.23 | |
|
|---|---|---|---|
| GII.P23 |
ORF1: 1..820
ORF2: 801..2432
ORF3: 2432..3078
LOCUS KT290889 3078 bp RNA linear VRL 02-JUN-2016
DEFINITION Norovirus GII strain Hu/PE/2010/GII.P23_GII.23/Loreto1847
nonstructural polyprotein gene, partial cds; VP1 gene, complete
cds; and VP2 gene, partial cds.
ACCESSION KT290889
VERSION KT290889.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 3078)
AUTHORS Lopman,B.A., Trivedi,T., Vicuna,Y., Costantini,V., Collins,N.,
Gregoricus,N., Parashar,U., Sandoval,C., Broncano,N., Vaca,M.,
Chico,M.E., Vinje,J. and Cooper,P.J.
TITLE Norovirus Infection and Disease in an Ecuadorian Birth Cohort:
Association of Certain Norovirus Genotypes With Host FUT2 Secretor
Status
JOURNAL J. Infect. Dis. 211 (11), 1813-1821 (2015)
PUBMED 25505295
REFERENCE 2 (bases 1 to 3078)
AUTHORS Collins,N.
TITLE Direct Submission
JOURNAL Submitted (15-JUL-2015) NCIRD/DVD/GRVLB, CDC, 1600 Clifton Rd NE,
Atlanta, GA 30329, USA
COMMENT ##Assembly-Data-START##
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..3078
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/PE/2010/GII.P23_GII.23/Loreto1847"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Peru"
/collection_date="2010"
/note="genotype: GII"
CDS <1..820
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="ALS40075.1"
/translation="YDADYSRWDSTQQRCVLGTALDIMVRYSAEPELAQIVAEDLLSP
SVMDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCAMSEVSGLSPDVVQSNSCFSF
YGDDEIVSTDIKLDPQKLTDKLREYGLIPTRPDKTEGPLIIRESLEGLTFLRRDVCRD
PAGWYGKLDQSSIMRQLYWTKGPNHEDPNETMIPHSQRPVQLMSLLGEAALHGPTFYK
RVSKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPESVNEDGVE"
CDS 801..2432
/note="capsid protein"
/codon_start=1
/product="VP1"
/protein_id="ALS03883.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNETMALEPVAGGAIAAPLTGQ
TNFIDPWIRGNYVQAPNGEFTVSPRNSPGEILLNLELGPELNPFLSHLSRMYNGYAGG
IDVQVIMAGNAFTAGKIIFAAIPPHFPVENLSPPQITMFPHIIVDVRTLEPINIPVPD
VRNNFFHYNQNNESRMRLVAMLYTPLRSNGSAEDVFTVSCRVLTKPSADFEFNYLVPP
TVESRTKPFTIPILTIGEMTNSRFPVPIDMLHTSPTENIVVQPQNGRCTIDGELLGTT
QLITSNICSFRGSISGHEGNDDQHLWHFNITNPNGTPFDPTEDVPAPLGTPDFRGQLY
GVISQRDREGTPSENNQKANRSHQGVISTISPKFVPKLGSVMIGTWTTDDIKNQPSKF
TPIGLNDDDNFKQWELPNYSGALTLNMGLAPSVFPTYPGEQILFFRSYLPLKGGYGSP
FIDCLVPQEWVAHFYQESAPAQTDVALIRYVNPETGRVLFEAKLHRQGFITVAKSGDS
PINVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ"
CDS 2432..>3078
/codon_start=1
/product="VP2"
/protein_id="ALS40076.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQKIDFENNKYFQNA
SFAHDKDMLNAQVEATKKLQADMIAIKQGVLVAGGFSPTDAARGAINAPITKALDWNG
TRYWAPNATSTTSMSGGFTGQVSHRTTPNFKTNQAPKPPPSSGSSVRSNSTQLTSLSS
HSSGSSRSSGSTVVSSLPSSSRTRDWVNQQNLNLEPHLPGSLRTAFVTPPSSQPLV"
ORIGIN
1 ttatgatgct gactattcca ggtgggactc aacacaacag agatgtgtcc tgggtactgc
61 acttgatata atggttagat actcagccga accagaatta gcacaaatcg tggctgagga
121 cttgctgtcg cctagcgtca tggacgttgg cgacttcaaa atcaccataa atgagggctt
181 accatcagga gttccgtgca catcccagtg gaactcaata gctcattggc tgttaacact
241 ctgtgccatg tcagaagtct caggactgtc accagatgtg gtacagtcaa attcatgctt
301 ctccttctat ggggatgatg aaatagtcag cactgacatc aaattggacc cccaaaaact
361 gactgacaag ttgagagagt atggcttaat tccaactagg cccgacaaaa cagaaggacc
421 acttataatc agagagagtc tagaaggcct aacattctta aggagggatg tgtgcagaga
481 cccagcaggg tggtatggca aacttgacca atcatcaatc atgagacagt tatactggac
541 aaaaggaccc aatcatgagg accccaatga aacaatgatc ccacattccc agaggccagt
601 gcaattgatg tccctacttg gtgaggcggc cctacacgga ccgacattct ataagagagt
661 tagcaagttg gtcatcactg aattaaagga aggtggaatg gatttctatg tgcccagaca
721 agaacctatg tttagatgga tgagattctc tgacttgagc acgtgggagg gcgatcgcaa
781 tctggctccc gaaagtgtga atgaagatgg cgtcgaatga cgccgctcca tctaatgatg
841 gtgcagccgg tctcgtacca gagatcaaca acgagacaat ggctttggaa ccagtggcag
901 gaggagcaat tgcagcccca ctaactggac aaacaaattt cattgatccc tggattagag
961 gtaattatgt gcaagcacca aatggtgaat ttacagtgtc ccccagaaat tcgcccggtg
1021 aaattttgct taatttagaa ttaggccctg aactcaaccc attcttgtcc catctatcta
1081 gaatgtacaa tgggtatgct ggcggtatcg atgtccaagt catcatggca ggcaatgcct
1141 tcaccgctgg taagatcatc tttgcagcaa tacctcccca cttccccgtg gaaaatctta
1201 gtccccctca gatcactatg ttccctcata ttatagtgga tgtcaggacc cttgaaccca
1261 taaatatccc tgtaccagat gttaggaaca acttcttcca ttataaccaa aacaatgagt
1321 ctcgcatgag actggtggcc atgttgtaca cccctcttag gtctaatggg tctgctgaag
1381 atgttttcac agtgtcatgt agggtcttaa caaaaccatc tgcagacttt gaatttaatt
1441 atctagtccc cccaactgta gagtcaagga ctaaaccctt cacaatacca atactcacaa
1501 ttggggaaat gacaaattca agattcccag tgcctattga catgcttcat accagtccaa
1561 cagaaaacat tgttgttcaa ccacaaaatg gtaggtgtac catagatggt gagttgcttg
1621 gcaccactca actgatcact tccaatatct gttcattcag aggatccatc tcagggcatg
1681 aaggcaatga tgaccaacac ctgtggcact tcaacatcac aaaccccaat ggcactccat
1741 ttgaccccac tgaagatgtg cctgcccccc tcggaacccc agatttcagg ggtcaattgt
1801 acggtgtcat ctcccagcga gatagagagg gaacaccctc ggaaaataat cagaaggcaa
1861 acaggtccca ccagggagtg atttcaacaa tctcaccaaa atttgtcccc aagttaggtt
1921 cagtcatgat tggcacatgg actactgatg atatcaagaa ccagccatcc aagttcaccc
1981 caattggcct caatgatgat gataatttta aacaatggga actgccaaat tattctgggg
2041 cgctcaccct caacatgggg ttggcaccta gtgttttccc cacctatcct ggtgaacaaa
2101 tccttttctt ccgctcctat ctgccattga agggagggta cggtagtcca tttattgact
2161 gcctagtacc tcaagaatgg gtcgctcact tctaccagga gtcagcaccc gcacaaacag
2221 atgtggccct aatcaggtat gtaaaccccg aaacaggacg tgtccttttc gaggccaaat
2281 tgcacagaca ggggttcatc accgttgcca agagcggcga cagccccatc aatgtgcctg
2341 ccaatggtta ttttaggttt gattcttggg tcaatcagtt ttactctctt gcccccatgg
2401 gaactgggaa cgggcgcaga aggattcagt aatggctgga gcttttatag caggattggc
2461 tggtgacatg ctcacaaaca ctgtagggtc tctagttaat gcaggagcta atgctattaa
2521 tcagaaaatt gattttgaga ataataaata tttccaaaat gcatcatttg cccatgataa
2581 ggatatgctg aatgcacagg ttgaggcaac caagaaactt caggctgaca tgattgccat
2641 caagcaaggg gtattagtcg cgggcggctt ttcccctact gatgcagccc ggggagcaat
2701 caacgccccc ataacaaaag ctctagattg gaatggaaca aggtactggg cgccaaatgc
2761 cacctccacc acttcgatgt caggtggctt cacaggacag gtttcgcaca ggaccacacc
2821 aaattttaaa accaaccagg cccccaagcc cccacctagt agtgggtctt cagtaaggtc
2881 caactcaacc caactcacta gtctgagctc ccactcctct gggtcatctc gatccagcgg
2941 atcaacagtg gttagctctt tgccttcttc tagcaggact agggattggg tcaatcaaca
3001 aaatctcaat ttggaaccac atttgcctgg gtctctcaga acagcttttg tcactccacc
3061 atctagtcag cctctagt
//