Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| JX846925 | GII.2 | |
|
|---|---|---|---|
| GII.P30 |
ORF1: 5..5104
ORF2: 5085..6713
ORF3: 6713..7492
LOCUS JX846925 7492 bp ss-RNA linear VRL 24-OCT-2013
DEFINITION Norovirus Hu/GII.2/KL109/1978/MYS, complete genome.
ACCESSION JX846925
VERSION JX846925.1
DBLINK BioProject: PRJNA70471
KEYWORDS .
SOURCE Norovirus Hu/GII.2/KL109/1978/MYS
ORGANISM Norovirus Hu/GII.2/KL109/1978/MYS
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7492)
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 Genome sequence lacks part of non-coding region.
##Assembly-Data-START##
Assembly Method :: clc_ref_assemble_long v. 3.22.55705
Coverage :: 70.9x
Sequencing Technology :: Sanger; Illumina; 454
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7492
/organism="Norovirus Hu/GII.2/KL109/1978/MYS"
/mol_type="genomic RNA"
/strain="Hu/GII.2/KL109/1978/MYS"
/host="Homo sapiens; sex: M"
/db_xref="taxon:1260940"
/country="Malaysia: Kuala Lumpur"
/collection_date="30-May-1978"
/note="genotype: GII.2"
gene 5..5104
/gene="POL"
CDS 5..5104
/gene="POL"
/note="genome polyprotein"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AFX71658.1"
/translation="MKMASNDASAAAAVNSNNDNAKSSSDGVLSSMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEPVVHYSAKDGITGLPELTTVRQPE
EVATAFSVPPLDQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLIAPDTLRKLHGELFPYTAFDNNCYAFCCWVLELNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANILLCALSSLFTRPIKDIIGK
LRPLNILNILASCDWSFASIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRLRPVVVMISGKPGIGKTHLAREL
AKKIATTLSGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPVHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDVEK
AKRDFPGQPDMWKSAYSPDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPNLTTFNFDRNKIQAFRQLAAENKYGLVDTMRVGGQLKSVRTI
PELKQALKNILIKRCQIVYGGSTYTLESDGKGSVKVEKVQNTNIQINNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIVKRMNIQNLWSRPPVGDAEEVTSQDGC
PKPKDDDEFVISSSDITPEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDERVVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGTQEFFGVPIKQIQIHKSGEFCRLRFPKSIRTDVTGMILEEGAPEG
TVVSLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTVPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPKKWSFSQACASLDKTTSSGHPHHIRKNDCW
NGESFTGKLADQASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGQIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRFSYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQTVAEDLLAPSVMDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLAPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQIYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPTFYTKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="POL"
/product="protein p48"
mat_peptide 995..2092
/gene="POL"
/product="NTPase"
/note="p41"
mat_peptide 2093..2629
/gene="POL"
/product="protein p22"
mat_peptide 2630..3028
/gene="POL"
/product="viral genome-linked protein"
/note="VPg"
mat_peptide 3029..3571
/gene="POL"
/product="3C-like protease"
/note="3CLpro; calicivirin"
mat_peptide 3572..5101
/gene="POL"
/product="RNA-directed RNA polymerase"
gene 5085..6713
/gene="VP1"
CDS 5085..6713
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AFX71659.1"
/translation="MKMASNDAAPSTDGAAGLVPESNSEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLQDNDHLYNITITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VITQRDKQNAAGQSQPANRGHDAVVPTYTAQYTPKLGQVQIGTWQTDDLKVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYLPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ"
gene 6713..7492
/gene="VP2"
CDS 6713..7492
/gene="VP2"
/note="minor capsid protein"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AFX71660.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPTDAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGRFTSTAPARQADFQHTQNRPSSGSSVSSYTTQSSRPTLTTTT
GSSHGTTSSNSTRSTNLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgtaaaca gcaacaacga
61 caacgcaaaa tcttcaagtg acggagtact atctagtatg gctgtcactt ttaaacgagc
121 ccttggggcc cggcctaaac agccgccccc gagggaaata ccacaaaggc ccccaaggcc
181 acccactcca gaactggtga aaaagatccc acctcccccg cccaacgggg aagatgaacc
241 ggtcgttcat tatagtgcca aagatggcat aactgggctg cccgaactta caacagtgag
301 gcagccagaa gaggttgcta cagcattcag cgtcccaccc ctcgaccaga gagagaatag
361 ggacgctaag gagccattga ccggcaccat cttggagatg tgggatggcg agatctacca
421 ttatggccta tatgtggagc gagggctggt gcttggcgtg cacaaaccac cagccgccat
481 cagcctcgct aaagttgagt taacacctct atctttgtat tggagaccag tgtacacccc
541 ccagtatctc atcgctcctg acaccctcag gaaactgcac ggggagttat ttccatacac
601 ggcctttgat aacaactgct atgccttctg ctgctgggtg ttggaattaa atgattcttg
661 gttgagcaga aggatgatac agagaacaac tggctttttc aggccttacc aagattggaa
721 taggaagccc ctccccacca tggatgactc caagttgaag aaggtggcca acatactttt
781 gtgtgccttg tcatcactat tcactagacc catcaaggac ataattggga aactcaggcc
841 tctcaacatc cttaacatcc tggcttcttg tgattggtct ttcgcaagta tagtggaatc
901 tctaattctc ctggctgaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgccccc ttactgggtg actacgagct gcaaggacct gaagatcttg ctgtggaact
1021 tgtaccggta gtaatggggg ggataggatt ggtgttgggg ttcaccaagg aaaagattgg
1081 gaagatgcta tcatctgccg cctccaccct gagggcctgc aaagaccttg gcgcctatgg
1141 gctggaaatt ctgaaactgg tcatgaaatg gtttttccca aagaaagagg aggcaaacga
1201 gcttgcgatg gtgagggcta ttgaggacgc agtcctagat ctcgaggcta ttgagaacaa
1261 ccatatgaca gctctactca aagataaaga tagcctcgcg acatacatga ggactcttga
1321 tttggaggaa gaaaaggcca gaaagctctc cactaagtcc gcttcacctg atatagtggg
1381 cacgatcaac gccctactgg ctagaattgc cgctgctcgt tcccttgtac acagggccaa
1441 ggaagaactg tccagcagac taaggccagt tgtcgtgatg atatctggca aacctggcat
1501 cgggaagacc catctggcta gagaattggc aaagaagatt gctacaaccc tctcaggaga
1561 ccagagggta ggcctcatcc cccgcaacgg agtcgaccac tgggatgctt acaagggtga
1621 gagagtcgtt ctctgggacg actatggaat gagtaaccct gtccacgatg ccctaagact
1681 ccaagaactt gctgacacct gccccctgac cctaaactgt gacagaattg agaacaaggg
1741 caaggttttt gacagtgatg ccataatcat cacaaccaac ctggctaacc cagctccact
1801 tgattatgtc aactttgaag cttgctccag gcgcattgac ttcctcgtgt atgccgatgc
1861 acctgacgtt gagaaggcga agcgcgactt cccgggacaa cctgacatgt ggaagagcgc
1921 ttacagtccc gacttctcac acatcaagct aatgctggct ccccagggtg gttttgacaa
1981 aaatggcaac accccacacg ggaaaggtgt catgaagacc ctcacaacag gctccctcat
2041 tgcccgtgct tcagggctcc tccatgaaag actggatgaa ttcgaactac aaggacccaa
2101 cctcacaact ttcaactttg accgtaataa aatacaggct tttaggcagc ttgctgccga
2161 aaacaaatat ggcctggtag acacaatgag agtgggtgga caactcaaga gtgtcagaac
2221 tataccagaa ctcaagcagg ccctcaagaa catattaatc aaaaggtgcc agatagtgta
2281 cggtggcagc acctacacac ttgaatctga tggcaaaggg agtgtgaaag tggaaaaagt
2341 gcaaaatacc aacatccaaa tcaacaatga gctagctggt gctctacacc acctccgatg
2401 cgccaggatc aggtattatg ttaaatgtgt tcaggaggct ctttactcca ttatccaaat
2461 tgctggggcc gcgtttgtaa ccacgcgcat tgtgaagcgc atgaacatac agaacttgtg
2521 gtcaaggcct ccagtaggag atgcggagga ggtcactagc caggatggtt gcccaaagcc
2581 caaagatgat gatgagttcg tcatctcgtc tagtgacatc acgcctgaag gcaagaaagg
2641 aaagaacaag actggccgcg gtaagaaaca cacagccttc tcgagcaagg gtctcagtga
2701 tgaggagtac gatgagtaca aaagaattag ggaagaaagg aatggtaagt actccataga
2761 agaatacctt caggacagag acaagtatta tgaggaagtg gccatagcca gggcaactga
2821 ggaagacttc tgtgaggaag aagaagccaa gatccgacag aggatattta ggccaacgag
2881 gaagcaacgc aaggaggaga gggcttccct tggccttgtc accggctcag agatcagaaa
2941 gagaaaccca gacgacttca aacctaaagg aaagctgtgg gctgatgatg aaagggttgt
3001 tgactataat gagaaactca gtttcgaggc ccccccgagc atctggtcaa ggatagtcaa
3061 ctttgggtca ggatgggggt tttgggtgtc ccctagcctg ttcattacat caacccatgt
3121 tataccccaa ggcactcagg aattctttgg tgtacccatc aagcagattc aaattcacaa
3181 atcaggggag ttctgccgcc tgagattccc taaatcaatc agaactgatg taacaggcat
3241 gatcctagaa gagggagccc cagaaggaac cgtggtctca ctactcatca agagaccaac
3301 cggtgagctc atgcccctgg cagccagaat gggcacccat gcgactatga agatccaagg
3361 tcgcacggtt gggggtcaga tgggcatgtt gctaacaggg tccaatgcta aaagcatgga
3421 tttgggcacg acgcctggtg actgtggctg cccctacatt tataagagag gcaatgacta
3481 cgtggtcatc ggcgtgcaca cagccgcggc tcgcggaggt aacactgtca tctgtgcaac
3541 ccagggtagt gaaggtgagg ccacgctcga aggcggtgat aacaaaggta cctactgtgg
3601 agctccaata ctaggtcctg gtaacgcacc caaactcagt accaagacta agttctggag
3661 gtcctccaca gtgccactcc cacccgggac ctatgaacca gcctacttag gtggcaagga
3721 tcccagggtg aagggtggac cttcactaca acaagtcatg agagaccagc taaaaccatt
3781 cactgagcct aggggcaaac cacccaagcc aagtgtgctg gaagccgcca agaagaccat
3841 tatcaatgtg ttggagcaaa caatagatcc ccccaaaaaa tggtcatttt cacaagcatg
3901 tgcgtcgctt gataaaacca cctccagcgg ccacccccac cacatacgga agaacgattg
3961 ctggaatgga gagtctttta caggaaaatt ggcagatcaa gcatcaaaag ctaacctaat
4021 gtatgaggaa ggaaagaaca tgaccccagt ctatacaggg gccctcaagg atgagctggt
4081 caagactgat aagatttatg ggcagatcaa gaaaaggctt ctttggggct cggacttggc
4141 aacaatgatc cgttgtgcgc gggcgtttgg agggttgatg gatgagctta aggcccattg
4201 tgtaacactt cctgtcaggg ttggaatgaa catgaatgag gatggaccca taatctttga
4261 aaagcactcc aggttctcat accactatga tgcagactac tcacgatggg actcaaccca
4321 acagagggca gtgctagctg cagccttgga aatcatggta aaattctcac cagaaccaca
4381 tttggcccaa actgttgcag aggatctcct agcccccagt gtgatggatg taggtgattt
4441 caaaataaca attaacgagg gtctgccctc gggagtaccc tgcacatcac agtggaattc
4501 catcgcccac tggctcctca cactctgtgc actatctgaa gtcacaaacc tggctcctga
4561 catcatacaa gctaactcct tgttctcttt ctatggtgat gatgaaattg tgagcactga
4621 tataaaatta gacccagaga aactcacagc aaaactcaaa gaatacggac tcaagccaac
4681 ccgcccggac aaaactgaag gacccctgat catatccgag gacttgaatg gtttgacctt
4741 tctgcggcgg accgtgaccc gtgatccagc tgggtggttt ggcaagttgg accagagttc
4801 aattctcagg cagatatact ggactagggg ccccaaccat gaggacccgt ccgaaacaat
4861 gataccacac tcccaaaggc ctatacagct gatgtctctt ttgggtgaag cagccttgca
4921 tggtccaacg ttttacacca aaatcagtaa attggtcatc acagagctga aggaaggtgg
4981 catggatttt tacgtgccca gacaggaacc catgttcagg tggatgaggt tctcggattt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctact gatggcgcag ccggcctcgt gccagaaagt aatagtgagg
5161 tcatggctct tgagcctgtg gctggtgctg ccttggcagc cccggttacc ggtcaaacaa
5221 atattataga cccttggatt agagcaaatt ttgtccaggc ccctaatggt gaattcacag
5281 tttctccccg caatgcccct ggtgaagtgc tattgaatct agaattgggt ccagaattaa
5341 atccttatct ggcacatttg gcaagaatgt acaacgggta tgccggtggg atggaggtgc
5401 aggtcatgct agctgggaac gcgttcacag ctggcaaatt ggtcttcgct gctgtaccac
5461 ctcattttcc ggttgaaaac cttagcccac agcaaattac catgttcccc catgtgatta
5521 tagatgttag gactttggaa cctgttttgt tgccactccc cgatgttaga aataatttct
5581 ttcattataa tcaaaaagat gatcctaaga tgagaattgt ggctatgctt tatactcccc
5641 tcaggtccaa tggttctggt gatgatgtgt ttacagtctc ttgtagggtg ttgactagac
5701 cctcccctga ttttgatttt acatacctgg tgccaccaac agtggaatcc aaaacaaaac
5761 catttactct tccaatcctt acacttgggg agctttccaa ctctagattt ccagtgtcca
5821 tagatcagat gtacactagc cccaatgaag tcatatctgt gcagtgccag aatggaaggt
5881 gcacactgga tggggagctc caaggaacaa cacagctcca agttagtggc atttgtgcat
5941 tcaaaggaga agtgaccgcc cacttgcagg acaatgatca cctatacaac atcaccatca
6001 caaacttgaa tgggtcccct tttgatccct ctgaggacat ccccgccccc ctgggtgtgc
6061 ccgactttca gggaagggtc tttggtgtca tcactcaaag agacaaacag aatgccgctg
6121 gacaaagcca gccggcaaac aggggacacg atgctgtagt tcccacttac acagcccagt
6181 acaccccaaa attgggtcag gttcaaattg gcacatggca gaccgacgat cttaaagtca
6241 accaaccagt aaaattcacc ccagtcggtc tcaatgatac agaacatttc aatcagtggg
6301 tggttcctag gtacgctggt gctttaaatc taaatacaaa tcttgccccc tctgttgctc
6361 cagtgtttcc aggggagcgt ttgctcttct ttaggtcata cctccccctt aagggtggtt
6421 atggaaaccc agctattgat tgcctgctac cacaagagtg ggtgcagcat ttttatcagg
6481 aagcagcccc ctcaatgagt gaggtggccc ttgtcagata catcaatccg gacactggcc
6541 gggcgctgtt tgaggccaaa ctccacagag ctggtttcat gacagtctcg agtaacacca
6601 gtgctccggt ggttgtgcct gccaacggat acttcagatt tgactcttgg gtgaaccaat
6661 tttattctct tgcccccatg ggaactggaa atgggcgtag aaggattcag taatggctgg
6721 agctttcgta gctggtctcg cgggggatgt gctcagcaat gggctcagtt cactaattaa
6781 tgcaggtgct aatgcaataa atcagagagc agaatttgat tttaaccaga gattacagca
6841 aaattctttt aatcatgata aggagatgtt gcaggctcag attcaggcaa ctaagcagct
6901 gcaggcagac atgatggcta taaagcaggg ggttctgacc gctggcggct tttcccctac
6961 tgatgcagcc agaggcgctg tgaacgcgcc catgacacag gcgctggatt ggaatggcac
7021 aaggtattgg gcaccaggct ccatgaggac tacatcctac tctggcaggt tcacatcgac
7081 cgccccggca aggcaggccg actttcaaca cactcaaaat cggccttcga gtggctcttc
7141 tgtgtcctct tataccactc aatcttcaag accaactcta accacaacca cagggtcctc
7201 acacggtaca acctcatcca attcgacccg tagcacaaac ctttcccagt cgacggtctc
7261 tagggctacc tctaggacta gtgagtgggt tagagatcaa aataggaatt tggaacccta
7321 catgcatggt gccttacaga cagcctttgt caccccacct tccagcaggg catctgacgg
7381 gacagtctca accgtcccca aaggtgtttt ggactcctgg acacctgcgt tcaacacccg
7441 caggcagccg ctttttgcac acctccgtaa gaggggggag tcacgggtgt aa
//