Rice latent virus 1

Basic Information

Genus Mastrevirus
NCBI Assembly GCF_004130515.1
Isolate Australia
Release date 2019/2/12
Submitter Kraberger,S., Geering,A.D.W., Walters,M., Martin,D.P., Varsani,A.
Host
Download Genome |GFF3 |PEP |CDS

Genomic Organization

JBrowse

Genome

NC_040792
ATGGCGAATTTCTCTATCCTCACTGACTCGGCCTACCCTACGGTTCCTTCGCCTCCAAGTCAAGCGGTGTCGGCCGGGTTTGAAGGTGCTCTGACGACGCTTTTCCTCGTCGTTATCGGCTCTCTACTGTTCGTTGGCGTGTTCTACCTCGGCTGGGTTCTCTGCGTGAAGGACCTCGTCCTCACCTTCAAGGCCCGCCGCCAAAGGAGGACCGAGGAGATCGGTTTCGGGAACACTCCCGCGAGGGTTGATGCCAGGGGGGTCTAAGAGGGCCTCGTCCGGGAAAGATGGTTCGAGGCCGAAGCGTCGCAAGGGAGAGCCCGAGGCCGCCTTTAGGGCCCGCATATTGGGCTGGGCCTCTTCCCAGTTCGGGAGGAGGGTCTACGGTGGCGTTGGTTCGTCGCAGAGTGCTCCGCTGCAGGTGCGGACGTACAAGTGGGAGAATCCGGACAAGAGTGCCATTGCTATCGATACCGGCTCCATATGGATCGTCAATACGTTGGACGCTGGTAACGGGGATGACCAGAGACATACTCACAAGACTATTATCTACAAGATGCTGTTTCAGGGTACGATGTGGATTAATGATGCCACGTCGGCAGTCTGCGGGCCACTGACAGTTCATTTCTGGCTGGTGTATGATGCTGCGCCGAAGGGGGTTCTTCCTGCCCTTACTGACATATTCGAGGAGGGATTCTCTGGCCTGGGTTCAACCTGGGTCGTTAACCGGGACAACGTTCACCGGTTCGTGGTGAAGAGGAGGTGGCAGATGCGACTGATGACCAATGGGCAGAAGCCGTACTACACTAACCGCAGTGGGAACGGAGATCCCACCAGTGTCACGATACGGGACTTCAGGAAGTTCTTCACGAAGCTGCGTACTGCAACGGAGTGGAAGAACTCCGCAACAGGAGGGATAGGGGATATAAAGAAAGGGGCCCTATATCTTTGTGCCATGTGTTCGCAGGCACCTGAGGGGTCCGCTAGAGCTATTAACCTGGGGGTGAAGTTTAGGGGCCAGAGCCGCATATACTTCAAATGTACCGGAAATCAATGATAATAAAACATAATATTTTATTCAGATTCCATAGATCCGTTGTTACAAGGCAGTACAGTTTGTACGACGAAGCACAGTATAGCGACGGATGGAGCACTGTGCGTAGCGTCCGGAGGAGGTTGGTAGGGCGGTATTAGGGAAGAAGGGCAACATACAATACCATACACACATTATTACACACTAAGCACCCGAAGGGTGCTTGAAGAAACTATCCCCTTCATACATGTAATGTATCACGCAGTTGCTTTCGATGTACTTGGTCTGAGCCGGTGTACATTGACTCAGCCAGTCTTCGTCTTCATTTACCAGGATGATGGAGGGGATCCCACCACTTATTACCTTCCGCTTGCCGTACTTAGGATTTACGGTGTAGTCACGGTGACATCCGATTAGCTGCTTCCAATTAGGGCAGTACTTGAACGGGATGTCGTCTATAACATTGTATTGTGCGGTGGGGTCATAAGTGGTGAAGTCCACCAGTCCGTTCCAATAGTTGTGCTTCCCGAGGCTTCTTGCCCAGGTTGTCTTTCCTGTTCGGGTTGGTCCGCATACATATAGGGAGGTATATCTTCTGGCGGTTGTTGGAGCATCCTGGATGTCAAATCATGGACGTGCTGTAGATATTCGGCAGTAGTTACATCAAGATAATCCATGTTTTGACGTGTTTGTGTGTATACTTCTTCACATACCGTGTATGTCTTTATGTTCTCTGTGGCCCACTGACTCAGCTGTTCGCTGCAACGTAGCTGATCAGTGGGGACAGAGCTTGCGTATGGAGTTACGGTGGTGGGGAAGAGCTTCTCTGCGCTGTACTCGAACTGGGCCAGCCTAGTTGCCCAGTCGAAGGGGAATGTCTGGCGTACCATAGAGAGGTACTCTGTTTTCGAGGTGGACGAGGAGATGATTTTCCTCATCTTGGTGTCCTTGGTGTCAGATCCAGGGGCCCTCCTCTTGAGGGTCTTCTTGCTGAACGGTTTGGCGTTGTAGAATTCGCCCCATTCTGCAATACTGACGGTTCCCGGCTTGGTGATGTAGTCTCTGACCTGCTTGCAGTTCTGAGCAGGCTGACAGTTAGGATGATAAGACTGATAGTCAAAAAACCTAGAGTCTTTGGTCTCCAGGCGGTTAGATAGCTGTAAAAGGGTGTGTAGGTGAAAGGATCCATCTTTGTGACTCTCACGAGTAACAAGTATGTAGATAGGTACACGACTGTGGAGCAGAGTAAGAAGATAGTGAAGGAGTTCCCAAGGATCAACAGGACACTTAGGATAGGTGAGGAAGAAGTACTTGGTCCGTACGCTGAATTGGTGGGAAGTGGAGGGATCGGCCATGAGTGAAGCGGAGCCGTTGGATTTGGCTGAAGGGGACGTGCGGGAGAATCCCGGTTGTCCAAAGGCTGCTTTTCCCACAAATCTATACCCTAGACCAGTGCGATGTGGGAAGTGCCTTAGGTGGGAACCTTGGGCCGGCTATTTATATGGGTGTCAAAGTGGCTGTAGTTGGGCCTTGGCCCACTCCAGCCGGGGGCCGGAAAGCGAAATCGCACTGATATAATGTTACCAGTGCGATTTCTCTTTCCGAGCGCGATAGCGCGAGGCGCCGGGTTTCCGCGTACCTTCTTACGCTGGGCCGCCTTTATGTGTGATGGGACGTAGGGGGGATTCCCATTAATTTATTAGTGCGCTCCATGACATCGGGGG

Gene Information

NCBI Accession YP_009553473.1
Location 1-267
Protein Name movement protein
Coding Region ATGGCGAATTTCTCTATCCTCACTGACTCGGCCTACCCTACGGTTCCTTCGCCTCCAAGTCAAGCGGTGTCGGCCGGGTTTGAAGGTGCTCTGACGACGCTTTTCCTCGTCGTTATCGGCTCTCTACTGTTCGTTGGCGTGTTCTACCTCGGCTGGGTTCTCTGCGTGAAGGACCTCGTCCTCACCTTCAAGGCCCGCCGCCAAAGGAGGACCGAGGAGATCGGTTTCGGGAACACTCCCGCGAGGGTTGATGCCAGGGGGGTCTAA
Protein Sequence MANFSILTDSAYPTVPSPPSQAVSAGFEGALTTLFLVVIGSLLFVGVFYLGWVLCVKDLVLTFKARRQRRTEEIGFGNTPARVDARGV

NCBI Accession YP_009553474.1
Location 251-1057
Protein Name capsid protein
Coding Region ATGCCAGGGGGGTCTAAGAGGGCCTCGTCCGGGAAAGATGGTTCGAGGCCGAAGCGTCGCAAGGGAGAGCCCGAGGCCGCCTTTAGGGCCCGCATATTGGGCTGGGCCTCTTCCCAGTTCGGGAGGAGGGTCTACGGTGGCGTTGGTTCGTCGCAGAGTGCTCCGCTGCAGGTGCGGACGTACAAGTGGGAGAATCCGGACAAGAGTGCCATTGCTATCGATACCGGCTCCATATGGATCGTCAATACGTTGGACGCTGGTAACGGGGATGACCAGAGACATACTCACAAGACTATTATCTACAAGATGCTGTTTCAGGGTACGATGTGGATTAATGATGCCACGTCGGCAGTCTGCGGGCCACTGACAGTTCATTTCTGGCTGGTGTATGATGCTGCGCCGAAGGGGGTTCTTCCTGCCCTTACTGACATATTCGAGGAGGGATTCTCTGGCCTGGGTTCAACCTGGGTCGTTAACCGGGACAACGTTCACCGGTTCGTGGTGAAGAGGAGGTGGCAGATGCGACTGATGACCAATGGGCAGAAGCCGTACTACACTAACCGCAGTGGGAACGGAGATCCCACCAGTGTCACGATACGGGACTTCAGGAAGTTCTTCACGAAGCTGCGTACTGCAACGGAGTGGAAGAACTCCGCAACAGGAGGGATAGGGGATATAAAGAAAGGGGCCCTATATCTTTGTGCCATGTGTTCGCAGGCACCTGAGGGGTCCGCTAGAGCTATTAACCTGGGGGTGAAGTTTAGGGGCCAGAGCCGCATATACTTCAAATGTACCGGAAATCAATGA
Protein Sequence MPGGSKRASSGKDGSRPKRRKGEPEAAFRARILGWASSQFGRRVYGGVGSSQSAPLQVRTYKWENPDKSAIAIDTGSIWIVNTLDAGNGDDQRHTHKTIIYKMLFQGTMWINDATSAVCGPLTVHFWLVYDAAPKGVLPALTDIFEEGFSGLGSTWVVNRDNVHRFVVKRRWQMRLMTNGQKPYYTNRSGNGDPTSVTIRDFRKFFTKLRTATEWKNSATGGIGDIKKGALYLCAMCSQAPEGSARAINLGVKFRGQSRIYFKCTGNQ

NCBI Accession YP_009553475.1
Location 1238-1648,1735-2388
Protein Name Rep
Coding Region ATGGCCGATCCCTCCACTTCCCACCAATTCAGCGTACGGACCAAGTACTTCTTCCTCACCTATCCTAAGTGTCCTGTTGATCCTTGGGAACTCCTTCACTATCTTCTTACTCTGCTCCACAGTCGTGTACCTATCTACATACTTGTTACTCGTGAGAGTCACAAAGATGGATCCTTTCACCTACACACCCTTTTACAGCTATCTAACCGCCTGGAGACCAAAGACTCTAGGTTTTTTGACTATCAGTCTTATCATCCTAACTGTCAGCCTGCTCAGAACTGCAAGCAGGTCAGAGACTACATCACCAAGCCGGGAACCGTCAGTATTGCAGAATGGGGCGAATTCTACAACGCCAAACCGTTCAGCAAGAAGACCCTCAAGAGGAGGGCCCCTGGATCTGACACCAAGGACACCAAGATGAGGAAAATCATCTCCTCGTCCACCTCGAAAACAGAGTACCTCTCTATGGTACGCCAGACATTCCCCTTCGACTGGGCAACTAGGCTGGCCCAGTTCGAGTACAGCGCAGAGAAGCTCTTCCCCACCACCGTAACTCCATACGCAAGCTCTGTCCCCACTGATCAGCTACGTTGCAGCGAACAGCTGAGTCAGTGGGCCACAGAGAACATAAAGACATACACGGTATGTGAAGAAGATGCTCCAACAACCGCCAGAAGATATACCTCCCTATATGTATGCGGACCAACCCGAACAGGAAAGACAACCTGGGCAAGAAGCCTCGGGAAGCACAACTATTGGAACGGACTGGTGGACTTCACCACTTATGACCCCACCGCACAATACAATGTTATAGACGACATCCCGTTCAAGTACTGCCCTAATTGGAAGCAGCTAATCGGATGTCACCGTGACTACACCGTAAATCCTAAGTACGGCAAGCGGAAGGTAATAAGTGGTGGGATCCCCTCCATCATCCTGGTAAATGAAGACGAAGACTGGCTGAGTCAATGTACACCGGCTCAGACCAAGTACATCGAAAGCAACTGCGTGATACATTACATGTATGAAGGGGATAGTTTCTTCAAGCACCCTTCGGGTGCTTAG
Protein Sequence MADPSTSHQFSVRTKYFFLTYPKCPVDPWELLHYLLTLLHSRVPIYILVTRESHKDGSFHLHTLLQLSNRLETKDSRFFDYQSYHPNCQPAQNCKQVRDYITKPGTVSIAEWGEFYNAKPFSKKTLKRRAPGSDTKDTKMRKIISSSTSKTEYLSMVRQTFPFDWATRLAQFEYSAEKLFPTTVTPYASSVPTDQLRCSEQLSQWATENIKTYTVCEEDAPTTARRYTSLYVCGPTRTGKTTWARSLGKHNYWNGLVDFTTYDPTAQYNVIDDIPFKYCPNWKQLIGCHRDYTVNPKYGKRKVISGGIPSIILVNEDEDWLSQCTPAQTKYIESNCVIHYMYEGDSFFKHPSGA

NCBI Accession YP_009553476.1
Location 1489-2388
Protein Name RepA
Coding Region ATGGCCGATCCCTCCACTTCCCACCAATTCAGCGTACGGACCAAGTACTTCTTCCTCACCTATCCTAAGTGTCCTGTTGATCCTTGGGAACTCCTTCACTATCTTCTTACTCTGCTCCACAGTCGTGTACCTATCTACATACTTGTTACTCGTGAGAGTCACAAAGATGGATCCTTTCACCTACACACCCTTTTACAGCTATCTAACCGCCTGGAGACCAAAGACTCTAGGTTTTTTGACTATCAGTCTTATCATCCTAACTGTCAGCCTGCTCAGAACTGCAAGCAGGTCAGAGACTACATCACCAAGCCGGGAACCGTCAGTATTGCAGAATGGGGCGAATTCTACAACGCCAAACCGTTCAGCAAGAAGACCCTCAAGAGGAGGGCCCCTGGATCTGACACCAAGGACACCAAGATGAGGAAAATCATCTCCTCGTCCACCTCGAAAACAGAGTACCTCTCTATGGTACGCCAGACATTCCCCTTCGACTGGGCAACTAGGCTGGCCCAGTTCGAGTACAGCGCAGAGAAGCTCTTCCCCACCACCGTAACTCCATACGCAAGCTCTGTCCCCACTGATCAGCTACGTTGCAGCGAACAGCTGAGTCAGTGGGCCACAGAGAACATAAAGACATACACGGTATGTGAAGAAGTATACACACAAACACGTCAAAACATGGATTATCTTGATGTAACTACTGCCGAATATCTACAGCACGTCCATGATTTGACATCCAGGATGCTCCAACAACCGCCAGAAGATATACCTCCCTATATGTATGCGGACCAACCCGAACAGGAAAGACAACCTGGGCAAGAAGCCTCGGGAAGCACAACTATTGGAACGGACTGGTGGACTTCACCACTTATGACCCCACCGCACAATACAATGTTATAG
Protein Sequence MADPSTSHQFSVRTKYFFLTYPKCPVDPWELLHYLLTLLHSRVPIYILVTRESHKDGSFHLHTLLQLSNRLETKDSRFFDYQSYHPNCQPAQNCKQVRDYITKPGTVSIAEWGEFYNAKPFSKKTLKRRAPGSDTKDTKMRKIISSSTSKTEYLSMVRQTFPFDWATRLAQFEYSAEKLFPTTVTPYASSVPTDQLRCSEQLSQWATENIKTYTVCEEVYTQTRQNMDYLDVTTAEYLQHVHDLTSRMLQQPPEDIPPYMYADQPEQERQPGQEASGSTTIGTDWWTSPLMTPPHNTML

References More References in PubMed

1

Simultaneous Detection of Herpes Simplex Virus Type 1 Latent and Lytic Transcripts in Brain Tissue.

Zhang S, et al.  ASN Neuro. 2022 Jan-Dec;14:17590914211053505. doi: 10.1177/17590914211053505.

PMID: 35164537
2

Herpes Simplex Virus-1 ICP27 Nuclear Export Signal Mutants Exhibit Cell Type-Dependent Deficits in Replication and ICP4 Expression.

Sanders LS 3rd, et al.  J Virol. 2023 Jul 27;97(7):e0195722. doi: 10.1128/jvi.01957-22. Epub 2023 Jun 13.

PMID: 37310267
3

Inhibition of acute-, latent-, and chronic-phase human immunodeficiency virus type 1 (HIV-1) replication by a bistriazoloacridone analog that selectively inhibits HIV-1 transcription.

Turpin JA, et al.  Antimicrob Agents Chemother. 1998 Mar;42(3):487-94. doi: 10.1128/AAC.42.3.487.

PMID: 9517921
4

Cyclin-dependent kinases as therapeutic targets for HIV-1 infection.

Rice AP.  Expert Opin Ther Targets. 2016 Dec;20(12):1453-1461. doi: 10.1080/14728222.2016.1254619. Epub 2016 Nov 10.

PMID: 27797603
5

Molecular characterization of a novel benyvirus infecting wheat in China.

Guo J, et al.  Arch Virol. 2023 Nov 6;168(12):284. doi: 10.1007/s00705-023-05912-5.

PMID: 37930401
6

Proteomic Profiling of a Primary CD4(+) T Cell Model of HIV-1 Latency Identifies Proteins Whose Differential Expression Correlates with Reactivation of Latent HIV-1.

Saha JM, et al.  AIDS Res Hum Retroviruses. 2018 Jan;34(1):103-110. doi: 10.1089/AID.2017.0077. Epub 2017 Dec 5.

PMID: 29084447
7

Release of HSV-1 Cell-Free Virions: Mechanisms, Regulation, and Likely Role in Human-Human Transmission.

Rice SA.  Viruses. 2021 Nov 30;13(12):2395. doi: 10.3390/v13122395.

PMID: 34960664
8

Quantification of southern rice black streaked dwarf virus and rice black streaked dwarf virus in the organs of their vector and nonvector insect over time.

Hajano JU, et al.  Virus Res. 2015 Oct 2;208:146-55. doi: 10.1016/j.virusres.2015.06.015. Epub 2015 Jun 23.

PMID: 26116274
9

Roles of CDKs in RNA polymerase II transcription of the HIV-1 genome.

Rice AP.  Transcription. 2019 Apr;10(2):111-117. doi: 10.1080/21541264.2018.1542254. Epub 2018 Nov 15.

PMID: 30375919
10

Stress-related immune suppression: health implications.

Glaser R, et al.  Brain Behav Immun. 1987 Mar;1(1):7-20. doi: 10.1016/0889-1591(87)90002-x.

PMID: 2837297