Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| AF414408 | GII.6 | |
|
|---|---|---|---|
| GII.P7 |
ORF1: 1..591
ORF2: 572..2224
ORF3: 2224..3003
LOCUS AF414408 3057 bp ss-RNA linear VRL 26-JUL-2016
DEFINITION Norwalk-like virus NLV/Baltimore/274/1993/US RNA polymerase (orf1)
gene, partial cds; and capsid protein (orf2) and minor structural
protein (orf3) genes, complete cds.
ACCESSION AF414408
VERSION AF414408.1
KEYWORDS .
SOURCE Norwalk-like virus NLV/Baltimore/274/1993/US
ORGANISM Norwalk-like virus NLV/Baltimore/274/1993/US
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 81)
AUTHORS Ando,T., Jin,Q., Gentsch,J.R., Monroe,S.S., Noel,J.S., Dowell,S.F.,
Cicirello,H.G., Kohn,M.A. and Glass,R.I.
TITLE Epidemiologic applications of novel molecular methods to detect and
differentiate small round structured viruses (Norwalk-like viruses)
JOURNAL J. Med. Virol. 47 (2), 145-152 (1995)
PUBMED 8830118
REFERENCE 2 (bases 1 to 3057)
AUTHORS Ando,T., Monroe,S.S., Noel,J.S. and Glass,R.I.
TITLE A one-tube method of reverse transcription-PCR to efficiently
amplify a 3-kilobase region from the RNA polymerase gene to the
poly(A) tail of small round-structured viruses (Norwalk-like
viruses)
JOURNAL J. Clin. Microbiol. 35 (3), 570-577 (1997)
PUBMED 9041391
REFERENCE 3 (bases 1 to 3057)
AUTHORS Ando,T., Noel,J.S. and Fankhauser,R.L.
TITLE Genetic classification of 'Norwalk-like viruses.
JOURNAL J. Infect. Dis. 181 (Suppl 2), S336-S348 (2000)
PUBMED 10804147
REFERENCE 4 (bases 1 to 3057)
AUTHORS Ando,T., Seto,Y., Noel,J.S., Monroe,S.S., Glass,R.I. and
Fankhauser,R.L.
TITLE Direct Submission
JOURNAL Submitted (27-AUG-2001) Viral Gastroenteritis Section/Division of
Viral and Rickettsial Diseases/National Center for Infectious
Diseases, Centers for Disease Control and Prevention, 1600 Clifton
Road, Atlanta, GA 30333, USA
FEATURES Location/Qualifiers
source 1..3057
/organism="Norwalk-like virus NLV/Baltimore/274/1993/US"
/mol_type="genomic RNA"
/strain="Hu/NLV/Baltimore/274/1993/US"
/db_xref="taxon:171840"
/clone="pYS07C"
/note="NLV/274; NLV/MD-11821; NLV/S07;
group: GII/6"
gene <1..591
/gene="orf1"
CDS <1..591
/gene="orf1"
/note="nonstructural protein"
/codon_start=1
/product="RNA polymerase"
/protein_id="AAL12976.1"
/translation="ILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKL
TQKLRKYGLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLY
WTRGPNHENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVISEIKSGGLEFY
VPRQEAMFRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
gene 572..2224
/gene="orf2"
CDS 572..2224
/gene="orf2"
/note="major structural protein"
/codon_start=1
/product="capsid protein"
/protein_id="AAL12977.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVKQLEPVLLPLPD
IRNRFFHYNQEDTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLISQTARAADSTGSPQRARNHPLHVQVKNLDGTQYDPTDDIPAVLG
AIDFKGTVFGVASQRDVSGQQEQGHYATRAHEAHIDTTDPKYAPKLGTILIKSDSDDF
NTNQPIRFTPVGMGDNNWRQWELPDYSGHLTLNMNLAPAVSPSFPGERILFFRSIVPS
AGGYGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT
VANSGNNPIVVPPNGYFRFEAWVNQFYTLAPMGSGQGRRRAQ"
gene 2224..3003
/gene="orf3"
CDS 2224..3003
/gene="orf3"
/codon_start=1
/product="minor structural protein"
/protein_id="AAL12978.1"
/translation="MAGAFFAGLAGDVVSNGIGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTGYSGQFSSSPVHRSPAAPQHTAPPKSKLQGDSTSVYSSPSTVSSQS
THSTVLSAGTGSSGFTPTSTATSTFSRTSDWVRGQNERLSPFMDGALRTTFVTPPSSK
ASSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI"
3'UTR 3004..3057
ORIGIN
1 atactaactt tgagtgcaat ggcagaagtt tcaggcctct cacctgatgt tgtccaagcc
61 cactcctgtt tttcatttta tggtgatgat gagatcgtta gcactgacat caatcttgac
121 cccatgaaat tgacacagaa actcaggaag tacggattgg ttcccacccg acctgataaa
181 actgaaggcc ccctcgtcat aactgaagac ctcaccggcc tgacgttcct gcgtaggtcg
241 attgcgcggg atccggccgg atggtttgga aaattggacc aggactcaat tctcaggcaa
301 ttatactgga caaggggacc caatcatgag aacccatatg agagcatggt cccccattcc
361 cagcgggcca cacagctcat ggcccttctt ggtgaggctt cactgcatgg tccccagttt
421 tacaagaaag ttagcaagat ggtcatcagt gagatcaaga gtggtggtct ggagttttat
481 gtgcccagac aagaggccat gtttaggtgg atgagattct ctgacctcag cacatgggag
541 ggcgatcgca atcttgctcc cgaaggtgtg aatgaagatg gcgtcgaatg acgctgctcc
601 atcgaatgat ggtgctgcca acctcgtacc agaggccaac aatgaggtta tggcacttga
661 accggtagtg ggagcctcaa tcgcagctcc tgttgtcggt cagcaaaata taattgaccc
721 ctggattaga gaaaattttg tccaagcacc acagggcgag ttcactgttt caccaaggaa
781 ttcgcctggt gagatgctct taaatcttga gttgggcccg gaacttaatc cctatttgag
841 tcatttatca cgcatgtata acggatatgc tggtggcatg caggttcagg tggtcctagc
901 tgggaatgcg ttcacagctg ggaaaatcat ctttgccgcc gtaccaccac atttccctgt
961 agaaaacatc agtgcagccc agataactat gtgtccccat gtaattgttg atgtgaaaca
1021 gcttgagcca gtgcttttgc ccctccctga cataaggaat agattcttcc actacaacca
1081 ggaggacact ccccgaatga ggcttgtagc catgctctat acacctctaa gggccaattc
1141 tggcgaggat gtgttcactg tgtcctgtag ggttctgact cgccctgctc cagattttga
1201 gtttacattc ttagtgccac caactgttga atcaaaaaca aagcccttta ctttgcctat
1261 cctgaccctt ggtgagttgt ctaactctcg ctttccggct gctatagata tgctttatac
1321 tgatcctaat gaatcaatag ttgtacaacc ccaaaatggt aggtgcactc ttgatggcac
1381 cttgcaaggc acaacacaat tagttcccac acagatttgt gcttttaggg gcaccctgat
1441 cagccagacc gcgagagcgg ccgactcaac aggctccccc cagagagccc gcaatcatcc
1501 attacacgtc caggtcaaga acctagacgg cacacagtac gacccaacgg atgatatacc
1561 tgcagtcctg ggggctattg acttcaaagg cacagtcttt ggagtggcta gccagaggga
1621 tgtctctgga caacaagaac agggccatta tgccaccaga gcccatgaag cacacattga
1681 tacaactgac ccaaagtatg cacccaaatt gggcacaatt cttatcaaat ctgattctga
1741 tgattttaat acaaatcagc ccattaggtt cactccggtg ggcatgggtg ataataattg
1801 gagacagtgg gaattacccg actattctgg ccatttaacc ttgaatatga accttgcccc
1861 tgctgtttct ccatccttcc ctggtgaacg aatccttttc ttcaggtcta tagtgccatc
1921 agccggcggc tatgggtctg gctatataga ctgtctcata ccccaggaat gggtgcagca
1981 tttctaccag gaagcagcgc cttcacaatc tgccgttgca ctggttaggt atgtcaaccc
2041 cgacactggg cgtaacatct ttgaggccaa gttgcacaga gaaggcttcc tcaccgtggc
2101 caattctgga aacaacccaa ttgtggtccc ccccaatggc tattttagat ttgaggcttg
2161 ggttaatcag ttttacacac ttgcccccat gggatcagga caggggcgta gaagggccca
2221 gtaatggctg gagccttctt cgcagggtta gcaggtgatg tcgtgtcgaa cggcatcggg
2281 tcccttatca atgcaggtgc taatgcagtt aatcaaaagg ttgagtatga ttttaataag
2341 caacttcaaa tggcatcatt taaacatgac aaggagatgt tacaatcaca ggtattggca
2401 accaaacaac tgcagcagga gatgatgaac ataaggcaag gggtgttgac cgctggcggc
2461 ttctcccctg cggatgctgc tagaggggct gttaatgctc cgatgacaaa gatactggac
2521 tggaatggca caagatattg ggcaccaaac agcatgaaaa ccacaggcta ctcaggacag
2581 ttctctagca gccctgtaca caggtcccct gctgctcccc agcatactgc tccaccaaag
2641 agtaagttgc aaggtgattc tactagtgtg tatagttctc cctccactgt ttcttcacaa
2701 tcaacccatt caacggtgct gtctgcagga actgggtcat ccgggttcac ccctacgtcc
2761 acagcaacct ccaccttttc tcggaccagt gactgggtta gaggtcagaa tgaaaggctt
2821 agcccgttta tggatggtgc cctccgaact acctttgtca caccaccatc gagcaaagct
2881 tcatcaaatg ggacggtctc aaccgtaccc aaagctgttt tggactcctg gactcctatg
2941 ttcaatacgc ataggcagcc tctcttcgcc cacttgcgta ggcgagggga gtcacagatt
3001 tagtgaaaag agtgattagg ttttctttcc ctttctcttt ctccttttct ctcttgt
//