Typing tool
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Typing tool
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Complete norovirus genomes
| JX846927 | GII.6 | |
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| GII.P7 |
ORF1: 5..5098
ORF2: 5079..6731
ORF3: 6731..7510
LOCUS JX846927 7534 bp ss-RNA linear VRL 07-FEB-2014
DEFINITION Norovirus Hu/GII.6/CHDC4073/1984/USA, complete genome.
ACCESSION JX846927
VERSION JX846927.1
DBLINK BioProject: PRJNA70471
KEYWORDS .
SOURCE Norovirus Hu/GII.6/CHDC4073/1984/USA
ORGANISM Norovirus Hu/GII.6/CHDC4073/1984/USA
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7534)
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 :: 46.8x
Sequencing Technology :: Sanger; Illumina; 454
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7534
/organism="Norovirus Hu/GII.6/CHDC4073/1984/USA"
/mol_type="genomic RNA"
/strain="Hu/GII.6/CHDC4073/1984/USA"
/host="Homo sapiens"
/db_xref="taxon:1260944"
/country="USA: District of Columbia"
/collection_date="08-Dec-1984"
/note="genotype: II.6"
gene 5..5098
/gene="POL"
CDS 5..5098
/gene="POL"
/note="genome polyprotein"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AFX71664.1"
/translation="MKMASNDATAAFGSQNSVNDSTNTTPSNKEEVGALSNIKVGFKK
MLGAVPKSTKAPSSDQHRPTVKIGPKTLVVPPEPPNGEDTIQFDAKSETISGLPDLTT
VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
GPEDLAVELVPVVMGGVGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
EVEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKN
VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDHASQTENEVSSAL
LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQEANEVEK
EVAQGKWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
SDIRKRRPDDFQPKGKLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
LITTTHVLPKGVKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
CSILIKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG
KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVKKNDHWNG
ESFTGPLADQASKANLMYEQAKHMQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide 5..1006
/gene="POL"
/product="protein p48"
mat_peptide 1007..2104
/gene="POL"
/product="NTPase"
/note="p41"
mat_peptide 2105..2623
/gene="POL"
/product="protein p22"
mat_peptide 2624..3022
/gene="POL"
/product="viral genome-linked protein"
/note="VPg"
mat_peptide 3023..3565
/gene="POL"
/product="3C-like protease"
/note="3CLpro; calicivirin"
mat_peptide 3566..5095
/gene="POL"
/product="RNA-directed RNA polymerase"
gene 5079..6731
/gene="VP1"
CDS 5079..6731
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AFX71665.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLISQTARAADSTDSPQRARNHPLHVQVKNLDGTQYDPTDDIPAVLG
AIDFQGTVFGVASQRDVSGQQEQGHYATRAHEAHIDTTDPKYAPKLGTILIKSDSDDF
NTNQPIRFTPVGMGDNNWRQWELPDYSGRLTLNMNLAPAVSPSFPGERILFFRSIVPS
AGGYGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT
VANSGNNPIVVPPNGYFRFEAWVNQFYTLAPMGSGQGRRRAQ"
gene 6731..7510
/gene="VP2"
CDS 6731..7510
/gene="VP2"
/note="minor capsid protein"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AFX71666.1"
/translation="MAGAFFAGLAGDVVSNGIGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHRPPAAPQHTAPPKSKLQGDSVSVYSSPSTVSSQS
THSTVLSAGTGSSRSTSTSTAASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSK
ASSNGTVSTVPKAVLDSWTPTFNTHRQPLFAHLRRRGESQI"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgctac cgctgccttt ggcagtcaaa actctgtcaa
61 tgacagtacc aacaccaccc cttctaacaa agaagaggtt ggtgcattat ccaacatcaa
121 agttggattt aagaaaatgc tgggtgccgt acccaagagc accaaagcac ccagcagtga
181 tcagcatcgc cccacagtta agatcgggcc taaaacatta gtagtccctc ctgagccccc
241 aaatggtgaa gacaccatac agtttgatgc gaagtcagaa actataagtg ggctaccaga
301 tttaacaacg gtgcaaaatg aacacgagaa caccccttac actgtccctc cattgagtga
361 gagggaacac agaccagcca ctgagccact tcctggcaca atattggaga tgtgggatgg
421 tgaattctac cactattccg tgtacgtcag cggcggcaaa gctctagggg ttcacaaacc
481 tccagcagct ataagcctcg cgacgataga gctcaccccc atatctcttt actggaggcc
541 cgtttacacc cccaactact tggtctgccc agacacattg aagggtcttg ctggtgaaaa
601 gttcccctac acggctttca gtaacaactg ttataacttc tgttgctggg tgcttgagct
661 caatgacaca tggcttagca gaagaagcat ctccagaact accggcttct tcaaaccata
721 ccagtcttgg aacaggaagc ctcttccaac cgttgatgac gggaagatca aaaaggtggc
781 caacgcaatc ctctgtgcac tcggctcgct gttttcaaaa ccaatcaaag acctgttagg
841 caagcttaaa ccattgaacc tgttacactt gctcgcgtca tgtgattgga cgtttgcggg
901 tatagtggag acagttatct taatggcgga acttttcaat gtcttttgga ctccgccaga
961 tgtctctaat ttcatagcct ccctgatagg tgactttgaa ttgcaagggc ctgaggacct
1021 ggctgtggag cttgttcccg tggtcatggg tggtgtagga atggttctcg gcttcaccgc
1081 tgagaagata ggccgcatgc tgtcatccgc tgcatcaaca ctgcgagcat gcaaagacct
1141 agggaactat gcccttgaca tactcaaatt ggtcatgaag tggttcttcc caaagaaaga
1201 agagaaagcc gagatggaaa ccttaagggc gattgaggat gccgtcctag atatggaagc
1261 catagggaac aaccatctca cgaccctcct caaggacaag gacagcctca cggccttcat
1321 gaagactttg gacctagaag aggagaaggc aaggaaattg tccactaaat catcctctcc
1381 ggacatcgtc ggcactatca atgccatact ggcaaggata gctgccgcca gatccctcct
1441 acacaaggcc aaagaagaaa tgttcagtag gatcagacca gtggttgtca tgatatcagg
1501 caggcctggc attggcaaaa cccatatggc aagacacttg gctaagagca tcgccaacac
1561 catgagtggc gaccagaggg tcgggctcgt tccgcgcaac ggggtcgacc actgggacgc
1621 ctacagggga gagagggtgg tcttatggga tgactacggt atggggaacc ctgttaaaga
1681 tgctttgaca ctacaagaac tggccgacac ctgcccagtc actctaaatt gtgataggat
1741 cgagaacaag gggaagatgt tcgacagtga tgtcatcata atcacgacca acctagtcaa
1801 ccctgcgccc ctcgattatg tgaacttcga ggcgtgctcc aggagagttg acttcttggt
1861 ctatgcagag tcaccagaag ttgaaaaggt taagagagat ttccctggcc aacctgacat
1921 gtggaaagac cactttaagc cagacttttc ccacataaag ttgaccctag ccccccaggg
1981 tgggtttgac aagaatggta acaccccgca tggcaagggc accatgcgat ccctaaccca
2041 gggatccctg actgcgcgag ttgcaggcct tgttcatgag aggagagatg agttccagct
2101 ccaagggaac gacctccaaa cgtacaactt tgacaccaac agggtctccg cattcaggaa
2161 gctggctgca gacaacaagt atggaattat ggaaacaatg agagtgggtg cggcactcaa
2221 aaatgtcaag actttggaag acctgaaagt cgccttgagg gatgtaaaat tcaatgagtg
2281 tgaaataatt tacaggaact ctaagtatcg agtctcttcc aacggtaagg gctctgtttc
2341 tgttgataaa gttgaggatc atgcatccca gactgaaaat gaggtgagct cagcacttct
2401 caggctcaga caagcaaggg ccagatatta tgtcagctgc ttccaagacc tcgtctacac
2461 tctcatacag gttgccgggg catcattcgt tgttaacagg atctccaaaa ggttctgctg
2521 ggagaggtgg gtcaaaccaa ccgagaccca agaagcgaat gaagtcgaaa aggaagtagc
2581 tcaaggtaaa tgggagattg aacccaagga cacagaacca gaaggcaaga agggcaagaa
2641 caagaaagga agaggcaaga aacacacagc tttctccagt aaaggcctga gtgatgaaga
2701 gtatgacgag ttcaagagaa tcagggaaga aaggaacgga aaatactcca ttgaggaata
2761 cctgcaagac cgggaccgct actacgaaga agtggcagtt gcccgggcaa cagaggagga
2821 cttctgtgaa gaggaagagg ccaagataag acaaagaatc ttccgcccga caaagaaaca
2881 gagaaaggag gaaagggggg tgctaggctt ggtcaccggc tcagacatca gaaagaggag
2941 accagacgat ttccaaccaa aaggtaaact gtgggcagac gacaccagaa gtgtggatta
3001 caatgagaga cttgatttcg aggctccccc aagtgtctgg tcgagaatag tcccattagg
3061 cactggttgg ggtttctggg tttcatccaa cctcctgatc acaacaacac atgtcttgcc
3121 taagggggtt aaggaactct ttggagttga aattaaacaa atccaaatcc acaaatctgg
3181 agagttctgc aggtttagat ttccaagacc aatcaggcca gacgtcacag gactcgtgtt
3241 ggaggaaggc gctccagaag gcactgtctg ttccatactc ataaagagac ctacaggtga
3301 gatgatcccc ctggcagtga ggatgggcac gcatgcatcc atgaaaatac agggtaggac
3361 cgttggtggc cagatgggga tgcttctcac aggggcaaac gcgaagaaca tggatcttgg
3421 caccggtcct ggtgactgcg gttgtcctta catctacaag cgcggcaatg acatagttgt
3481 cgcgggtgtc cacaccgcag cagcccgggg gggcaacact gtcatatgtg ccactcaagg
3541 gcaagatgga gaggcagtcc ttgaggggaa tgaggacctc ggcacttact gcggtgctcc
3601 aatcctgggc cctggcaagg cgcctaaact cagcacgaag accaaattct ggcgttcatc
3661 accagatgcc ttgccacctg gcacatatga acctgcttac ctgggaggca aggaccctag
3721 agtggagaaa ggaccctccc tgcagcaagt catgagagat cagctaaagc cctttacaga
3781 gcccaggggc aaaccaccta gacctgcagt cttagaagaa gctaaaaaga cagtgatgaa
3841 tgttctagaa caaaccattg accctgctaa gccatggacc tactcgcaag catgtgcctc
3901 actggacaaa accacttcca gtggtagccc ccaccatgtc aagaaaaatg accattggaa
3961 tggggagtcc ttcactggtc cccttgcaga tcaagcatct aaagccaacc tcatgtatga
4021 acaggccaaa catatgcagc ccgtgtacac ggccgcgctc aaagatgagc ttgttaagac
4081 tgacaagatc tacaaaaaga taaagaagag gctcctatgg gggtctgacc ttggcacaat
4141 gatcaggtgc gccagggctt ttggcggtct catggacagc atgaaggcaa gttgcatagc
4201 tcttccatgc agagtgggaa tgaacatgaa tgaagatggc cccatcatat ttgacaaaca
4261 ctctaagtac aggtatcact atgatgctga ctattctagg tgggattcaa ctcagcaaag
4321 gagcattctc tctgccgcta tggaagtgat ggtgcggttt tctgctgaac cagaattggc
4381 acaagtagtt gcagaggacc ttttggcacc tagccagcta gatgttggcg attttgtcat
4441 ctcagtccag gagggtctgc catcaggagt cccatgcaca tcacagtgga attcaatagc
4501 acactggatc ctaactttga gtgcaatggc agaagtgtca ggtctctcac cagatgttgt
4561 ccaagcccac tcctgctttt cattttatgg tgatgatgag atcgttagca ctgacatcaa
4621 ccttgacccc atgaaattga cacagaaact cagggagtac ggtctggttc ccacccgacc
4681 tgataaaact gaaggccccc tcgtcataac tgaagacctc accggcctga cgttcctacg
4741 taggtcgatt gcacgggatc cggctgggtg gtttggaaaa ttggaccagg actcaattct
4801 caggcaatta tactggacaa gggggcccaa tcatgagaac ccatacgaga gcatggtccc
4861 ccattctcag cgggccacac agctcatggc ccttcttggt gaggcttcac tgcatggtcc
4921 ccagttttac aagaaagtta gcaagatggt catcaatgag atcaagagtg gtggtctgga
4981 attttatgtg cccagacaag aggccatgtt taggtggatg agattctctg acctcagcac
5041 atgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg
5101 ctgctccatc gaatgatggt gctgccaacc tcgtaccaga ggccaacaat gaggttatgg
5161 cacttgaacc ggtggtggga gcctcaatcg cagctcctgt tgtcggtcag caaaatataa
5221 ttgacccctg gattagagaa aattttgtcc aagcaccaca gggcgagttc actgtttcac
5281 caaggaattc gcctggtgag atgctcttaa atcttgagct gggcccagaa cttaatccct
5341 atttgagtca tttgtcccgc atgtacaacg gatatgctgg tggcatgcag gttcaggtgg
5401 tcctagctgg gaatgcgttc acagctggga aaatcatctt tgccgccgta ccaccacatt
5461 tccctgtaga aaacatcagt gcagcccaga taactatgtg tccccatgtg attgttgatg
5521 tgagacagct tgaaccagtg cttttgcccc tccctgatat aagaaatagg ttcttccatt
5581 acaaccagga gaacaccccc cggatgaggc tcgtagccat gctctataca cctctaaggg
5641 ccaattctgg cgaggatgtg ttcactgtgt cctgtagggt tctgactcgc cccgctccag
5701 attttgagtt cacattttta gtgccaccaa ctgtcgaatc aaaaacaaaa ccctttactt
5761 tacctatcct aacccttggt gagttgtcta actcccgctt tccggctgct atagatatgc
5821 tttacactga ccccaatgag tcaatagttg tacagcccca aaatggtagg tgcactcttg
5881 atggcacctt gcaaggcaca acacaattag ttcccacaca gatttgtgct tttagaggta
5941 ccctgatcag ccaaaccgcg agagcggctg actcaacaga ctccccccag agagcccgta
6001 atcatccatt acacgtccag gtcaagaacc tagacggcac acagtacgac ccaacggatg
6061 atatacctgc agtccttggg gctattgact tccaaggcac agtctttgga gtggctagtc
6121 agagggatgt ctctggacaa caagaacagg gccactatgc caccagagcc catgaagcac
6181 acattgacac aactgaccca aagtatgcac ccaaattggg cacaattctt attaaatctg
6241 attctgatga ttttaataca aatcagccca ttaggttcac tccggtgggc atgggtgaca
6301 acaattggag acagtgggaa ttacccgatt attctggcag actaaccttg aatatgaacc
6361 tagcccctgc cgtttctcca tccttccctg gtgaacgaat ccttttcttc aggtctatag
6421 taccatcagc cggcggctac gggtctggtt atatagactg tctcataccc caggaatggg
6481 tacaacactt ctaccaggaa gcagcgcctt cacaatctgc cgttgcactg gttaggtatg
6541 tcaatcccga tactgggcgt aacatctttg aggccaagtt acacagagaa ggcttcctca
6601 ccgtggccaa ttctggaaac aacccaattg tggtcccccc caatggttat tttaggtttg
6661 aggcttgggt taatcagttt tacacacttg cccccatggg atctggacag gggcgtagaa
6721 gggcccagta atggctggag ccttcttcgc agggttagca ggtgatgtcg tgtcgaacgg
6781 catcggatcc cttattaatg caggtgccaa tgcagttaat caaaaggttg agtatgattt
6841 taataagcaa cttcagatgg catcatttaa acatgacaag gagatgctac aatcacaggt
6901 gctggcaacc aaacaactgc agcaggagat gatgaacata aggcaggggg tgttgaccgc
6961 tggcggcttc tcccctgcgg atgctgctag aggggctgtt aatgctccaa tgacgaagat
7021 actggactgg aatggcacaa gatattgggc accaaacagc atgaaaacca caagctattc
7081 aggacagttc tctagtagcc ctgtacacag acctcctgct gctccccagc atactgctcc
7141 accaaaaagt aagttgcaag gtgattctgt tagtgtatat agttctccct ctactgtttc
7201 ttcacaatca acccattcaa cagtgctgtc tgcaggaact gggtcatcca ggtccacctc
7261 cacgtccaca gcagcctcca ccttgtctcg gaccagtgac tgggttaggg gtcagaatga
7321 aaggcttagc ccgtttatgg atggtgccct ccaaactacc tttgtcacac caccatcgag
7381 caaagcttca tcaaatggga cggtctcaac cgtacccaaa gctgttttgg actcctggac
7441 tcctacgttc aatacgcata ggcagcctct cttcgcccat ttgcgtaggc gaggggagtc
7501 acaaatttag tgaaaagagt gattaggttt tctt
//