Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| KF378731 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P4 Yerseke |
ORF1: 1..826
ORF2: 807..2429
ORF3: 2429..3235
LOCUS KF378731 3282 bp RNA linear VRL 04-NOV-2013
DEFINITION Norovirus PA13/2013/ITA RNA-dependent RNA polymerase gene, partial
cds; and capsid protein VP1 and minor capsid protein VP2 genes,
complete cds.
ACCESSION KF378731
VERSION KF378731.1
KEYWORDS .
SOURCE Norovirus PA13/2013/ITA
ORGANISM Norovirus PA13/2013/ITA
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 3282)
AUTHORS Martella,V., Medici,M.C., De Grazia,S., Tummolo,F., Calderaro,A.,
Bonura,F., Saporito,L., Terio,V., Catella,C., Lanave,G.,
Buonavoglia,C. and Giammanco,G.M.
TITLE Evidence for Recombination between Pandemic GII.4 Norovirus Strains
New Orleans 2009 and Sydney 2012
JOURNAL J. Clin. Microbiol. 51 (11), 3855-3857 (2013)
PUBMED 23966499
REFERENCE 2 (bases 1 to 3282)
AUTHORS Martella,V., Giammanco,G.M., De Grazia,S. and Medici,M.C.
TITLE Direct Submission
JOURNAL Submitted (09-JUL-2013) Dipartimento di Medicina Veterinaria,
Universita' degli Studi di Bari 'Aldo Moro', S.P. Casamassima Km 3,
Valenzano, Bari 70010, Italy
COMMENT ##Assembly-Data-START##
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..3282
/organism="Norovirus PA13/2013/ITA"
/mol_type="genomic RNA"
/strain="PA13/2013/ITA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1394725"
/country="Italy"
/collection_date="10-Jan-2013"
/note="recombinant between pandemic GII.4 norovirus
strains;
type: GII.P4 New Orleans_GII.4 Sydney 2012"
CDS <1..826
/note="replicative enzyme"
/codon_start=2
/product="RNA-dependent RNA polymerase"
/protein_id="AGU68327.1"
/translation="YHYDADYSRWDSTQQRAVLAAALEIMVKFSPEPHLAQVVAEDLL
SPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTNLSPDTIQANSLF
SFYGDDEIVSTDIKLDPEKLTAKLREYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVT
RDPAGWFGKLEQSSILRQMYWTRGPNHGDPSETMIPHSQRPIQLMSLLGEAALHGPAF
YSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 807..2429
/codon_start=1
/product="capsid protein VP1"
/protein_id="AGU68328.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFAAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTLRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGYKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
CDS 2429..3235
/codon_start=1
/product="minor capsid protein VP2"
/protein_id="AGU68329.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAALARGPSSKSS
NSPTATSVYSNQTTSTRLGSTAGSGTSVLSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ataccactat gatgcagatt actctcgatg ggattcaaca caacagagag ctgtgctggc
61 agcagctcta gaaatcatgg ttaaattctc cccagaacca catttggctc aggtagtcgc
121 ggaagacctt ctttctccta gcgtggtgga cgtgggcgac ttcacaatat caatcaacga
181 gggtcttccc tctggggtgc cctgcacctc ccagtggaac tccatcgccc actggctgct
241 cactctctgt gcgctctctg aagtcacaaa cctgtcccct gataccatac aggctaactc
301 cctcttctct ttttatggtg atgatgaaat tgttagcaca gacataaaat tggacccaga
361 aaaattgaca gcaaagctca gagaatatgg gttaaaacca acccgccctg ataaaactga
421 aggacccctc gtcatctctg aagacctgaa tggcctaact ttcctgcgga gaactgtgac
481 ccgcgaccca gctggttggt ttggaaaact ggagcagagt tcaatactca ggcaaatgta
541 ctggactagg ggtcccaacc atggagaccc atctgaaaca atgattccac actcccaaag
601 acccatacaa ttaatgtccc tactggggga ggccgctctt cacggcccag cattttacag
661 caaaatcagc aaattggtta ttgcagagct aaaagaaggt ggcatggatt tttacgtgcc
721 cagacaagag ccaatgttca gatggatgag attctcagat ttgagcacgt gggagggcga
781 tcgcaatctg gctcccagtt ttgtgaatga agatggcgtc gagtgacgcc aacccatctg
841 atgggtccgc agccaacctc gtaccagagg tcaacaatga ggttatggct ctggagcccg
901 ttgttggtgc cgctattgcg gcacctgtag cgggccaaca aaatgtaatt gacccctgga
961 ttagaaacaa ttttgtacaa gcccctggtg gagagtttac agtgtcccct agaaacgctc
1021 caggtgaaat actatggagc gcgcccttag gccctgatct aaatccctac ctatcccatt
1081 tggctagaat gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt ctcgcgggga
1141 acgcgttcgc cgccgggaag atcatatttg cagcagtccc accaaatttt ccaactgaag
1201 gcttaagccc cagccaggtc actatgttcc cccatataat agtagatgtt agacaactag
1261 aacctgtgct gattccctta cccgatgtca ggaataattt ctatcattac aatcaatcaa
1321 atgattccac tattaagttg atagcaatgt tgtatacacc acttagggct aataatgctg
1381 gggacgatgt cttcacagtt tcttgccgag ttctcacgag accatccccc gattttgatt
1441 tcatattttt agtgccaccc acagttgagt caagaactaa accattctct gtcccagttt
1501 taactgttga ggagatgacc aattcaagat tccccattcc tttggaaaag ttgttcacgg
1561 gtcccagcag tgcctttgtt gttcaaccac aaaacggcag gtgcacgact gatggcgtgc
1621 tcctaggcac cacccaactg tctcctgtca acatctgcac cctcagaggg gatgtcaccc
1681 acatcacagg tagtcgtaac tacacaatga atttggcttc tcaaaattgg aacaattatg
1741 acccaacaga agaaatccca gcccctctag gaactccaga ttttgtgggg aagattcaag
1801 gcatgctcac tcaaaccaca aggacagatg gttcaacacg cggttacaaa gctacagtgt
1861 acactgggag cgccgacttt gctccaaaac tgggtagagt tcaatttgaa actgacacag
1921 accatgattt tgaagctaac caaaacacaa agttcacccc agtcggtgtc atccaagatg
1981 gtagcaccac ccaccgaaat gaaccccagc agtgggtgct cccaagttac tcaggcagaa
2041 atactcataa tgtgcatctg gcccccgctg tagcccccac ttttccgggt gagcaacttc
2101 tcttcttcag atccaccatg cccggatgca gcgggtaccc caacatggat ttggactgtc
2161 tgctccccca ggaatgggtg cagtacttct accaggaggc agccccagca caatctgatg
2221 tggctctgct aagatttgtg aatccagaca caggtagggt tttgtttgag tgtaagcttc
2281 acaaatcagg ctatgttaca gtggctcaca ctggccaaca tgatttggtt atccccccca
2341 acggttactt taggtttgat tcctgggtca accagttcta cacgcttgcc cccatgggaa
2401 atggaacggg gcgtagacgt gtagtataat ggctggagct ttctttgctg gattggcatc
2461 tgatgtcctt ggctctggac ttggttctct tatcaatgct ggggctgggg ccatcaacca
2521 aaaagttgaa tttgaaaata acagaaaatt gcaacaagca tccttccaat ttagcagcaa
2581 tctgcaacag gcctcctttc aacatgacaa agagatgctc caagcacaaa ttgaggccac
2641 caaaaagcta caacaggaaa tgatgaaagt taagcaggca atgctcctag agggtgggtt
2701 ctctgagacg gatgcagccc gcggggcaat caacgccccc atgacaaaag ctttggactg
2761 gagcgggaca aggtactggg ctcccgatgc taggactaca acatacaatg caggccgctt
2821 ttccacccct caaccatcgg gggcactgcc aggaagagct aatcttaggg atgctgccct
2881 tgctcggggt ccctccagca aatcttctaa ctctcctact gctacttctg tgtactcgaa
2941 tcaaactact tcaacgagac ttggttctac agctggttct ggaaccagtg tcttgagcct
3001 cccgtcaact gcaaggacta ggagctgggt tgaggatcaa agtaggaatt tgtcaccttt
3061 catgaggggg gcccacaaca tatcgtttgt caccccacca tctagcagat cctctagcca
3121 aggcacagtc tcaaccgtgc ctaaagagat tttggactcc tggactggcg ctttcaacac
3181 gcgcaggcag cctctcttcg ctcacattcg taagcgaggg gagtcacggg tgtaatgtga
3241 aaagacaaaa ttgattatct ttctttttct ttagtgtctt tt
//