Complete norovirus genomes
Length: 7,527 |
3 CDS
ORF1: 5..5110
ORF2: 5091..6737
ORF3: 6737..7501
LOCUS JX846924 7527 bp ss-RNA linear VRL 24-OCT-2013
DEFINITION Norovirus Hu/GII.3/HK71/1978/CHN, complete genome.
ACCESSION JX846924
VERSION JX846924.1
DBLINK BioProject: PRJNA70471
KEYWORDS .
SOURCE Norovirus Hu/GII.3/HK71/1978/CHN
ORGANISM Norovirus Hu/GII.3/HK71/1978/CHN
Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA
stage; Caliciviridae; Norovirus.
REFERENCE 1 (bases 1 to 7527)
AUTHORS Madupu,R., Halpin,R., Ransier,A., Fedorova,N., Stockwell,T.,
Amedeo,P., Bishop,B., Edworthy,P., Gupta,N., Katzel,D., Li,K.,
Schobel,S., Shrivastava,S., Thovarai,V., Wang,S., Kim,M., Bok,K.,
Sosnovtsev,S.V., Wentworth,D.E. and Green,K.Y.
TITLE Direct Submission
JOURNAL Submitted (31-JUL-2012) J. Craig Venter Institute, 9704 Medical
Center Drive, Rockville, MD 20850, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: clc_ref_assemble_long v. 3.22.55705
Coverage :: 65.0x
Sequencing Technology :: Sanger; Illumina; 454
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7527
/organism="Norovirus Hu/GII.3/HK71/1978/CHN"
/mol_type="genomic RNA"
/strain="Hu/GII.3/HK71/1978/CHN"
/host="Homo sapiens"
/db_xref="taxon:1260941"
/country="China: Hong Kong"
/collection_date="05-Jan-1978"
/note="genotype: GII.3"
gene 5..5110
/gene="POL"
CDS 5..5110
/gene="POL"
/note="genome polyprotein"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AFX71655.1"
/translation="MKMASNDASAAAAAASNNDNAKSSSDGVLNSMAVTFKRALGARP
KQPPPRETTQKQKPPRPPTPELVKKIPPPPPNGEDELVVSYSIKDGVSGLPELSTVSQ
PDEANTAFSVPPLNQRENRDAKEPLPGTILEMWDGEIYHYGLYVERGLVLGVHKPPAA
ISLAKVELTPLSLYWRPVYTPQYLMSPDTLRKLHGELFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKMANIILCALSSLFTRPIKDII
GKLRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKDEANELAMVRSIEDAVLDLEAIENNHMTSLLKDKDSLATYMRTLDLEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAR
ELAKKIAATLTGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDV
EKAKRDFPGQPDMWKDAFKPDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTSGSLIA
RASGLLHERLDEYELQGPTPTTFNFDQNKVFAFRQLAAENKYGLMDTMRVGSQLKGVK
TVSELKQALKNIAIKRCQIVYSGSTYSLESDGKGNVKVEKVQSTTVQTNNELSGALHH
LRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDAEETINKD
GCPKPKDDEEFVISSEDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLG
LVTGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWV
SPSLFITSTHVIPQGSQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAP
EGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAMLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRIKGGPSLQQVMRDQLKPFT
EPRGKPPNPSVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNE
CWNGESFTGKLADQASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGS
DLATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYNYHYDADYSR
WDSTQQRAVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISITEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAK
LKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTR
GPNHEDPSETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVIAELKEGGMDFYVPR
QEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..1000
/gene="POL"
/product="protein p48"
mat_peptide 1001..2098
/gene="POL"
/product="NTPase"
/note="p41"
mat_peptide 2099..2635
/gene="POL"
/product="protein p22"
mat_peptide 2636..3034
/gene="POL"
/product="viral genome-linked protein"
/note="VPg"
mat_peptide 3035..3577
/gene="POL"
/product="3C-like protease"
/note="3CLpro; calicivirin"
mat_peptide 3578..5107
/gene="POL"
/product="RNA-directed RNA polymerase"
gene 5091..6737
/gene="VP1"
CDS 5091..6737
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AFX71656.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKVIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPINLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGTLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPAP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTSGRFTPKLGSLEISTESDDFDPNQP
TRFTPVGIGVDNEADFQQWSLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6737..7501
/gene="VP2"
CDS 6737..7501
/gene="VP2"
/note="minor capsid protein"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AFX71657.1"
/translation="MAGAFIAGLAGDMLTSTVGSLVNAGASAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPITRVLDWSG
TRYWAPNATSTTSMSGGFTSQTVHRTTPNFKTNQAPKSTPSSGSSVRSNSTQLTSLSS
HSSGSSRSSGSTVVSSLPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASNSD
TVSTVPKSVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgctgcca gcaacaacga
61 caacgcaaaa tcttcaagtg acggagtact aaatagtatg gctgtcactt ttaaacgagc
121 cctcggggcc cggcccaaac agccgccccc gagggaaaca acacaaaaac aaaaaccccc
181 acgaccgccc actccggagt tggtcaaaaa gatcccgcct cccccgccca acggggagga
241 cgagttagtg gtctcctata gtattaaaga tggcgtctcc ggtttgcctg agctctccac
301 cgtcagtcaa ccagacgagg ccaacacagc atttagtgtc cccccattaa accaaaggga
361 gaacagagat gctaaggaac cactgcccgg caccatcctg gagatgtggg acggagagat
421 ctaccattat ggcctgtacg tggaacgggg tctggtgctt ggggtacaca aaccaccagc
481 ggctattagt cttgccaagg ttgagttgac accattgtct ctatattgga gaccagtgta
541 caccccccag taccttatgt ccccggacac tctcagaaag ctacatggag aactattccc
601 ttatacggcc tttgataata actgttatgc cttctgttgt tgggttttag atctaaacga
661 ctcttggctt agcaggagaa tgatacagag aacaactggc tttttccggc cctaccagga
721 ctggaacaga aagccccttc ccaccatgga tgattccaaa ttgaaaaaga tggccaatat
781 aatactgtgt gctttgtcat cgctgtttac caggcccatt aaggacataa ttggaaagtt
841 gagaccccta aacatcctca atatattggc ttcctgcgat tggacttttg caggtatagt
901 agaatcccta atcctcttgg cagagctctt tggagttttc tggacgcccc cagatgtgtc
961 tgcgatgatc gcccccttac taggtgacta cgagctacag ggacctgaag accttgctgt
1021 ggagctcgta ccagtagtaa tgggggggat aggtttggtt ctaggtttca ccaaagaaaa
1081 gattggaaaa atgctatcat ctgctgcatc cactcttagg gcttgtaaag accttggagc
1141 atacgggttg gaaatcttaa aattggtcat gaagtggttc ttcccgaaga aagatgaggc
1201 aaacgagctc gcaatggtga gatccatcga ggacgcagta ttggatctcg aagcaattga
1261 aaacaaccac atgacctctt tgctcaaaga caaggacagt ttggcaacct acatgagaac
1321 tctagatctt gaagaggaga aggctagaag actctccacc aagtctgcct ctcctgacat
1381 cgtgggcaca atcaatgccc tattggcgcg gatcgcagcc gcccgctccc tggtgcatcg
1441 ggcaaaagaa gagctctcta gcaggccaag gcccgttgtt gtgatgatat caggcaaacc
1501 aggaatagga aagactcacc tcgctagaga gttagcaaag aaaattgcag ccaccctcac
1561 aggagatcag agggtgggcc ttgtcccacg gaacggtgtt gaccactggg acgcatacaa
1621 aggtgagaga gtcgtccttt gggatgacta tgggatgagc aaccccattc acgacgccct
1681 cagactgcaa gaacttgctg acacgtgccc cctaacacta aattgtgata ggattgagaa
1741 caagggaaaa gtctttgaca gtgacgctat aatcattaca actaatctgg ccaacccagc
1801 accactggac tatgtcaact ttgaagcatg ctcaaggcgc attgacttcc tcgtgtatgc
1861 tgacgcccct gatgttgaaa aggcgaagcg cgactttcca ggacaacctg atatgtggaa
1921 ggacgctttc aaacccgact tctcacacat aaaactaatg ctggcccctc aaggtgggtt
1981 tgataagaac ggcaacaccc cacacggaaa gggcgtcatg aaaaccctca catctggttc
2041 tctcattgca cgtgcatcag ggctcctcca tgaaagattg gacgaatacg agttgcaagg
2101 cccaacgccc acaaccttca atttcgacca gaacaaggtc tttgctttca ggcaactcgc
2161 tgctgaaaac aaatacgggt tgatggacac tatgagagtg ggaagccagc tcaagggagt
2221 caaaactgtg tcagagctta agcaggcgct caagaacatc gcaattaaaa ggtgccagat
2281 agtctacagt ggttccacat actcacttga atctgatggc aaaggtaatg tgaaagttga
2341 gaaggtacag agtacaactg tgcaaacaaa caatgagcta tctggtgcgc tacaccacct
2401 cagatgcgcc aggatcagat attatgttaa gtgtgtccag gaggcccttt attccatcat
2461 ccaaattgct ggggccgcgt ttgtcaccac gcgcattgca aaacgcatga acatacaaaa
2521 tctctggtct aagccacagg tggaggatgc agaagaaacc atcaataaag atgggtgccc
2581 aaagccaaaa gatgatgagg aatttgtcat ctcgtctgaa gacatcaaag tcgagggcaa
2641 gaagggaaag aacaagtctg gccgtggcaa gaaacacaca gccttttcaa gcaagggtct
2701 cagtgatgag gagtacgatg aatacaaaag aattagagaa gaaagaaatg gtaagtactc
2761 catagaagaa taccttcagg acagggacaa atactatgaa gaggtggcca tagccagggc
2821 tactgaagag gacttctgtg aggaagagga agccaaaatc cgacagagga ttttcagacc
2881 aacgaggaaa caacgtaaag aggagagggc ttctcttggc ctggtcacag gctcagaaat
2941 caggaagagg aacccagacg acttcaaacc caagggaaag ttgtgggctg atgacgacag
3001 gagtgtcgat tacaatgaga aactcagctt tgaagctccc ccaagcatct ggtcaagaat
3061 agtcaacttt ggttcaggtt ggggtttctg ggtttcacca agtttgttta taacatccac
3121 ccatgttata cctcagggat cacaggagtt cttcggggtt tccattaaac agatccaaat
3181 ccacaaatcg ggtgagttct gccgactaag atttccaaaa ccaatcagaa ctgatgtgac
3241 aggcatgatc ctggaggaag gggcccctga aggaacagtg gccacactac tcataaagag
3301 accaactggg gagctcatgc cactggcagc taggatgggc acccacgcaa ctatgaagat
3361 ccagggtcgc actgttgggg gccaaatggg aatgctcttg acaggatcca acgccaagag
3421 catggacctg ggtactacac caggtgattg tgggtgccca tatatctaca aaagaggaaa
3481 tgactacgtg gtcattggag tccacactgc cgccgctcgc ggggggaaca ccgtcatctg
3541 tgcaacccag ggaagcgagg gtgaggccat gcttgaaggt ggtgacaaca aaggcaccta
3601 ttgcggtgcc ccaatcctag gtccaggaaa tgcccccaag ctcagtacta agaccaaatt
3661 ttggaggtcc tcaacagctc cactcccacc tggcacatac gaaccagcct acctcggagg
3721 taaggacccc aggatcaaag gtggcccctc attacaacaa gtcatgagag atcaattaaa
3781 gccattcacg gaacccaggg gcaaaccacc aaacccaagt gtgctagaag ctgccaaaaa
3841 gaccatcatt aatgttcttg aacaaacaat agacccacca caaaaatggt catttgcaca
3901 agcatgcgca tcgcttgaca aaaccacctc cagtggccac ccgcaccaca tgcggaagaa
3961 tgaatgttgg aatggagagt ccttcacagg aaaattggca gaccaagctt caaaagctaa
4021 cctaatgtat gaggaaggta aaaacatgac cccggtctac acaggtgccc tcaaggatga
4081 gctagtcaaa actgacaaaa tatatggcaa gattaagaag aggctcctct gggggtcaga
4141 cctggcaacc atgatccggt gcgctcgagc attcggaggg ctaatggatg aactcaaggc
4201 ccactgcgtc acactcccta ttagggttgg gatgaacatg aatgaggatg gccccatcat
4261 ctttgagaag cactccaggt acaactacca ttatgatgca gattactctc ggtgggattc
4321 aacacaacag agggctgtgt tagctgcagc tctagaaatc atggtaaaat tttccccaga
4381 accacaccta gcccagatag tcgcagaaga ccttttgtcc cccagtgtga tggacgtggg
4441 cgatttcaaa atatcaatca ctgaagggct cccctctggg gtgccttgca cctcacaatg
4501 gaactccatc gcccattggc tcctcacact ctgtgcactc tctgaggtaa caaatttgtc
4561 ccctgacacc atccaagcaa attctctttt ctctttctat ggtgatgatg aaattgtgag
4621 cacagatatt aaattggatc cagaaaagct gacagctaaa ttgaaagagt atgggctaaa
4681 accaactcgc cctgacaaga ctgaaggacc tctggtcatc tctgaggact tgaatggtct
4741 gaccttcctg cggagaactg taacccgcga cccagctggt tggtttggaa aattggaaca
4801 gagttcaata cttagacaaa tgtattggac caggggcccc aatcatgagg acccctccga
4861 aacaatgata ccacattccc aaagacccat acagctaatg tccctactag gtgaagctgc
4921 actgcatggc ccatcattct acagcaagat cagtaagcta gttattgcag agttgaagga
4981 aggtggcatg gatttttacg tgcccagaca agaaccaatg tttcgatgga tgaggttctc
5041 agacttgagc acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg
5101 cgtcgaatga cgctgctcca tctaacgatg gtgccgccgg cctcgtccca gagatcaaca
5161 atgaggcaat ggcgctagag ccagtggcgg gtgcagcgat agcagcaccc ctcactggcc
5221 agcaaaacat aattgatccc tggattatga ataattttgt gcaagcacct ggtggtgagt
5281 ttacagtgtc acctaggaat tcccctggtg aagtgcttct taatttagaa ttaggtccag
5341 aaataaaccc ctatttggct caccttgcta ggatgtacaa tggttatgca ggtgggtttg
5401 aagtgcaggt agtcctggct ggaaacgcgt ttacagcagg aaaggtgatc tttgcagcta
5461 taccccccaa ttttccaatt gataatctga gcgcagcaca aattacaatg tgcccgcatg
5521 tgattgtgga tgtcaggcag ctggaaccaa ttaatcttcc gatgcctgat gtccgcaaca
5581 atttctttca ttataatcaa gggtctgatt cgaggttacg cttaattgca atgctgtata
5641 cacctcttag ggcaaacaat tccggagatg atgtttttac tgtgtcctgt agagtattaa
5701 ctaggcctag ccctgatttc tcattcaatt ttcttgtccc acccactgtg gaatcaaaga
5761 caaaaccctt caccctcccc attctgacta tctctgaaat gtctaattcc aggtttccag
5821 tgccaattga ctctctacac accagcccga ctgagaacat tgttgtccag tgccaaaatg
5881 ggcgcgtcac tcttgacggt gagttaatgg gtaccaccca actcttgccg agtcagatat
5941 gtgctttcag gggcacgctc accagatcaa caagcagggc cagtgatcaa gccgacacag
6001 caacccctag gttattcaat tattattggc acatacaatt ggacaatcta aatggaaccc
6061 cctacgaccc tgcagaggac ataccagccc ctctgggaac accagacttc cggggcaagg
6121 tctttggcgt agccagccag agaaaccctg acagcacaac aagagcacat gaagcaaaag
6181 tggacacaac atctggtcgc ttcaccccga aattgggttc cctagaaata tccactgaat
6241 ccgatgactt tgacccaaac caaccaacaa gattcacccc agttggcatt ggggttgaca
6301 atgaggcaga ttttcagcaa tggtccttac ctgactattc cggtcagttc actcacaaca
6361 tgaacttagc cccagctgtc gcccccaatt tccctggtga gcagcttctt ttcttccgct
6421 cacagttgcc atcttctggt gggcggtcta acgggattct agactgcctg gtcccccagg
6481 aatgggttca acacttctac caggaatcag cccctgccca aacacaggtg gccctggtta
6541 ggtatgtcaa ccctgacact ggtagagtgc tatttgaggc caagctacat aaattaggtt
6601 tcatgactat agctaagaat ggtgactctc caataaccgt ccctccaaat gggtacttta
6661 ggtttgaatc ttgggtgaac cccttttata cacttgcccc catgggaact ggaaatgggc
6721 gcagaaggat tcaataatgg ctggagcctt tatagcagga ttggctggtg acatgctcac
6781 aagtactgtg ggatctttag ttaatgcagg ggctagtgct atcaatcaaa aagttgattt
6841 tgaaaataat aaatatttac aaaatgcatc ttttaatcat gataaggaga tgttaaatgc
6901 acaaattgag gcaacaaaga ggctacaggc tgacatgatt gctatcaaac aaggggtctt
6961 gaccgctggc ggcttttccc ccactgatgc agcccgtggg gcaattaatg cccccataac
7021 aagagttttg gactggagtg gaacgaggta ctgggcacca aacgccacct ccacaacctc
7081 aatgtcaggt ggcttcacaa gccaaactgt acacagaacc acaccaaatt ttaaaacgaa
7141 ccaggccccc aagtccacac ccagcagtgg gtcttcagtg agatcaaact caacccaact
7201 cactagcttg agctcacact catccgggtc gtctcgatcc agcgggtcta cggttgttag
7261 ctcattgcca tcttccaaca ggactaggga ttgggtcaat caacagaatt tcaatttgga
7321 accacacatg cctggatctc tcaggacagc ttttgtcact ccaccatcta gtacagcctc
7381 taattcagac acggtctcaa ccgtgcccaa aagtgttttg gactcctgga catctgcgtt
7441 taatacgcgc agacagccgc tattcgcaca ccttcgcaga aggggggagt caaatgttta
7501 gtgaaaagat tatcttaaat ttagttt
//
