Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| KC517376 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P31 |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS KC517376 7509 bp RNA linear VRL 02-APR-2015
DEFINITION Norovirus Hu/GII-4/Taoyuan/CGMH66/2012/TW ORF1, VP1, and VP2 genes,
complete cds.
ACCESSION KC517376
VERSION KC517376.1
KEYWORDS .
SOURCE Norovirus Hu/GII-4/Taoyuan/CGMH66/2012/TW
ORGANISM Norovirus Hu/GII-4/Taoyuan/CGMH66/2012/TW
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7509)
AUTHORS Chen,S.Y., Feng,Y., Chao,H.C., Lai,M.W., Huang,W.L., Lin,C.Y.,
Tsai,C.N., Chen,C.L. and Chiu,C.H.
TITLE Emergence in Taiwan of Novel Norovirus GII.4 Variants Causing Acute
Gastroenteritis and Intestinal Hemorrhage in Children
JOURNAL J. Med. Microbiol. (2015) In press
PUBMED 25752853
REMARK Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7509)
AUTHORS Tsai,C.N., Lin,C.Y., Huang,W.L., Chen,Z.S., Chen,S.Y. and Chiu,C.H.
TITLE Direct Submission
JOURNAL Submitted (23-JAN-2013) Chang Gung University, Graduate Institute
of Clinical Medical Sciences, No. 259, Wenhua 1st Rd., Guishan
Township, Taoyuan County 333, Taiwan (R.O.C.)
COMMENT ##Assembly-Data-START##
Assembly Method :: Vector NTI v. 10
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7509
/organism="Norovirus Hu/GII-4/Taoyuan/CGMH66/2012/TW"
/mol_type="genomic RNA"
/isolate="Hu/GII-4/Taoyuan/CGMH66/2012/TW"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1325218"
/geo_loc_name="Taiwan"
/collection_date="18-Aug-2012"
/note="genotype: GII.4"
CDS 1..5100
/codon_start=1
/product="ORF1"
/protein_id="AGK25923.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP
KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE
ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LKPLNILNILAACDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAVENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
VKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALGLQELADTC
PLTLNCDRIENKGKVFDSDAIIIATNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEYELQGPALTTFNFDRNEILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
SDLKQALKNITIKKCQIVYSGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIRIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGC
LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHAAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5081..6703
/note="viral capsid protein"
/codon_start=1
/product="VP1"
/protein_id="AGK25924.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLSTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
CDS 6703..7509
/note="minor capsid protein"
/codon_start=1
/product="VP2"
/protein_id="AGK25925.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPPTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 atgaagatgg cctctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc
61 gcaaaatctt caagtgacgg tgtgttttct aacatggctg tcacttttaa gcgggccctc
121 ggggcgcggc ctaaacagcc gcccccgaag gaaataccac ccagaccccc gcgaccaccc
181 acaccagaac tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg
241 gtctcttaca gcgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa
301 ccggaagaaa ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac
361 gccaaggagc cactaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac
421 ggcctgtacg tggaacgagg tcttatactt ggtgtgcaca agccaccggc agccattagc
481 cttgccaagg tcgagctagc accgctctct ttgttctgga gacctgtata caccccccag
541 tatctcatct ctccagacac tcttaggaga ctacatggag agtcattccc ctacactgca
601 tttgacaaca attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggcta
661 agcaggagaa tgattcagag aacaacaggt ttcttcaggc cgtaccagga ttggaacagg
721 aaacccctcc ccactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc
781 actttgtctt cactattcac cagacccatt aaagacataa tagggaagtt gaaacctctt
841 aacatcctta acattctggc tgcatgtgat tggaccttcg caggcatagt ggaatcctta
901 atactcttgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc
961 gcccccttgc taggtgatta tgaactgcaa ggacctgagg accttgcagt ggaactggtc
1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagaa aatcggaaag
1081 atgctatcat ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggactg
1141 gaaatcttaa aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg
1201 gctatggtga ggtccatcga ggatgcagta ctagacctcg aggcagttga aaacaaccac
1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt
1321 gaggaggaga aagccagaaa actctcaacc aaatctgctt cacccgatat tgtgggcaca
1381 atcaactctc ttctggcaag aatcgccgct gcacgctccc tagtgcatcg ggcgaaagaa
1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg
1501 aaaactcacc ttgccaggga gctggtcaag aagatcgcgg cctccctcac aggggaccag
1561 cgcgtgggtc ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaaga
1621 gttgtcctat gggacgacta tggaatgagc aaccccatcc atgatgccct cgggttgcag
1681 gagcttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa
1741 gtctttgaca gtgatgccat aattatcgcc accaatctgg ccaacccagc accactggat
1801 tatgtcaact ttgaagcgtg ctcgagacgc attgacttcc tcgtgtacgc agaagcccct
1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc
1921 agtcctgact tctcacacat aaaactgtca ttggctccac agggtggttt tgacaagaac
1981 ggcaacaccc cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc
2041 cgagcatcag ggctactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc
2101 accactttca actttgaccg caacgagata cttgctttta gacagcttgc tgctgaaaac
2161 aagtatgggc tgatggacac aatgagagtt ggaaagcagc tcaaggatgt caagaccatg
2221 tcagacctca aacaagcact caagaacatc acgatcaaga agtgccagat agtgtacagt
2281 ggtagcacct acacacttga ggctgatggc aagggtagtg tgaaggttga caaagtgcaa
2341 agtgccactg tgcagaccaa caatgaacta gccggtgccc tacaccacct aagatgcgct
2401 agaatcagat actatgttaa gtgcgtccag gaggcactgt attccatcat ccgaatcgct
2461 ggggctgcat tcgtcaccac gcgcatcgct aagcgtatga atatacagaa tctctggtcc
2521 aagccacagg tggaagacac agaagagatg gccaacaagg atggttgcct aaaacccaaa
2581 gatgatgaag agtttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag
2641 aacaagtccg gccgtggcaa gaagcacgca gccttttcaa gcaaagggct cagtgatgag
2701 gagtacgatg agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagag
2761 taccttcagg acagagacaa gtactacgag gaggtggcca ttgccagggc aaccgaagag
2821 gacttctgtg aagaagaaga ggccaaaatc cggcagagaa ttttcagacc aacaaggaaa
2881 caacgcaaag aagagagggc ctctctcggc ttggtcacag gctctgaaat caggaagaga
2941 aacccagaag acttcaaacc caagggaaag ctgtgggctg atgatgacag aagtgttgac
3001 tacaatgaga aactcaactt tgaggcccca ccaagcatct ggtcgcggat agtcaacttt
3061 ggttcaggct ggggcttctg ggtctccccc agtctgttta taacatcaac ccatgtcata
3121 ccccaaggtg caaaagagtt cttcggagtc cctatcaagc aaatccagat acacaaatca
3181 ggtgaattct gccggttgag attcccaaag ccaatcagaa ctgatgtgac gggcatgatt
3241 ctagaagaag gtgcgcccga gggaaccgtg gccacactgc tcatcaagag accaactgga
3301 gagctcatgc ctctggcagc cagaatgggg acccatgcaa ccatgaaaat tcaggggcgc
3361 acagttggag ggcaaatggg tatgctcctg acaggatcca acgccaagag tatggaccta
3421 ggcacaacac caggcgactg cggctgcccc tacatctaca agagggggaa tgactacgtg
3481 gtcataggag tccatacggc cgctgcccgt ggaggaaaca ctgtcatatg tgccacccag
3541 gggagtgagg gagaagccac acttgaagga ggtgacagta aagggacata ctgtggcgca
3601 ccaatcttgg gcccagggag cgctccgaag ctcagtacca agactaagtt ttggagatca
3661 tccacaacac cactcccacc tggcacctac gaaccggcct acctcggtgg caaagaccct
3721 agagtcaaag gtggcccttc attgcaacaa gttatgaggg accagctgaa gccattcaca
3781 gaacccagag gcaaaccacc aagaccaaat gtgttggaag ctgccaagaa aaccatcatc
3841 aatgtccttg agcaaacaat tgatccaccc caaaaatggt catttgcgca agcttgcgca
3901 tcccttgaca aaaccacctc cagcggccac ccgcaccaca tgcggaaaaa cgattgttgg
3961 aatggggagt ccttcacagg gaaattggct gatcaagcct ccaaggccaa cctaatgttt
4021 gaagagggaa agaacatgac tccagtctac acaggtgcac ttaaagatga gttggtaaag
4081 accgataaag tttatggtaa ggtcaagaag aggcttctgt ggggttcaga tctggcgacc
4141 atgatacggt gcgcccgagc ttttggaggc cttatggatg aactcaaggc acactgtgtc
4201 acacttcctg tcagagttgg tatgaacatg aatgaggatg gccccatcat ctttgagaag
4261 cactccagat atagatatca ctatgatgct gattattccc ggtgggactc gacacaacaa
4321 agggatgtgc tagcagcagc actagaaatc atggttaagt tctctccaga accacacctg
4381 gcccagatag ttgcagaaga cctcctttcc cctagcgtaa tggatgtagg tgactttcaa
4441 atatcaataa gtgagggtct cccctctggg gtaccttgta cctcccagtg gaattccatc
4501 gcccactggc tcctcactct gtgtgcactc tctgaagtca cggacctgtc ccctgacatc
4561 attcaggcca actccctttt ctccttctat ggtgatgatg agattgtaag cacagacata
4621 aagttggacc cagagaagct gacagcaaaa ctcaaggagt acgggctgaa accaacccgc
4681 cccgacaaaa ctgaaggacc ccttgttatc tctgaagacc tggatggcct gacattcctc
4741 cggagaactg tgacccgtga tccagctggc tggtttggaa agttggaaca aagttcaatt
4801 ctcaggcaaa tgtactggac caggggtccc aaccatgaag atccatttga aacaatgata
4861 ccacactccc aaagacccat acaattgatg tccttgctgg gcgaggctgc actccacggc
4921 ccggcattct acagcaaaat tagcaaatta gtcattgcag agttgaagga gggtggcatg
4981 gatttttacg tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctctggag cccgttgttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt ttacagtatc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttgggccctg atctaaatcc
5341 ctacctatcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt
5401 aattctcgcg gggaacgcgt tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcttga gccccagcca agtcactatg ttcccccata tagtagtaga
5521 tgttaggcaa ctagaacctg tgttgattcc cttacccgat gttaggaata atttctatca
5581 ttacaatcaa tcaaatgacc ccaccattaa gttgatagca atgttgtata caccacttag
5641 ggctaataat gctggggatg atgtcttcac agtttcttgc cgagttctca cgagaccatc
5701 ccccgatttt gatttcatat ttctagtgcc acccacagtt gagtcaagaa ctaaaccatt
5761 ctctgtccca gttttaactg ttgaggagat gaccaattca agattcccca ttcctttgga
5821 aaagttgtcc acgggtccca gcagtgcctt tgttgtccaa ccacaaaacg gcaggtgcac
5881 gactgatggc gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag
5941 aggagatgtc acccatatca caggtagtcg taactacaca atgaatttgg cttctcaaaa
6001 ttggaacaat tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt
6061 ggggaagatt cagggcgtgc tcacccaaac cacaaggaca gatggctcaa cacgcggcca
6121 caaagctaca gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt
6181 tgaaactgac acagaccatg attttgaagc taaccaaaac acaaagttca ccccagttgg
6241 tgtcatccaa gatggtggca ccacccaccg aaatgaaccc caacagtggg tgctcccaag
6301 ttactcaggc agaaatactc ataatgtgca tctggccccc gctgtagccc ccacttttcc
6361 gggtgagcaa cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat
6421 ggatttggac tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc
6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt
6541 tgagtgtaag cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt
6601 ggttatcccc cccaatggtt attttaggtt tgattcctgg gtcaaccagt tttacacgct
6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcagta taatggctgg agctttcttt
6721 gctggattgg catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct
6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc
6841 caatttagta gcaatctaca acaggcttcc tttcaacatg acaaagagat gctccaagca
6901 caaattgagg ccaccaaaag gctacaacag gaaatgatga aagttaagca ggcaatgctc
6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caatcaacgc ccccatgaca
7021 aaagctttgg actggagcgg gacaaggtac tgggctcccg atgctaggac tacgacatac
7081 aatgcaggcc gcttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt
7141 agggatgctg tccctgctcg gggttcctcc agcaagtctt ctaattcttc tactgctact
7201 tctgtgtact caaatcaaac tacttcaacg agacttggtt ctacagctgg ttctggtacc
7261 agtgtctcga gcttcccgcc aactgcaagg actaggagct gggttgagga tcaaagtagg
7321 aatttgtcgc ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagt
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aggttttgga ctcctggact
7441 ggcgctttca acacgcgcag gcagccactc ttcgctcaca ttcgtaagcg aggggagtca
7501 cgggcgtaa
//