Synthetic Gene DataBase
 

Synthetic Gene 142


 
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Field NameNatural GeneSynthetic Gene
SGDB Gene ID129142
GenBank AccessionNC_001802AX306430
GenBank GI962935717645654
Gene Namegag-polgag-pol
Gene Length (bp)43083981
Specieshuman Immunodeficiency Virus (HIV-1)Homo sapiens, Simian
StrainsType 1H1299, 293
CDSatgggtgcgagagcgtcagtattaagcgggggagaattagatcgatgggaaaaaattcgg
ttaaggccagggggaaagaaaaaatataaattaaaacatatagtatgggcaagcagggag
ctagaacgattcgcagttaatcctggcctgttagaaacatcagaaggctgtagacaaata
ctgggacagctacaaccatcccttcagacaggatcagaagaacttagatcattatataat
acagtagcaaccctctattgtgtgcatcaaaggatagagataaaagacaccaaggaagct
ttagacaagatagaggaagagcaaaacaaaagtaagaaaaaagcacagcaagcagcagct
gacacaggacacagcaatcaggtcagccaaaattaccctatagtgcagaacatccagggg
caaatggtacatcaggccatatcacctagaactttaaatgcatgggtaaaagtagtagaa
gagaaggctttcagcccagaagtgatacccatgttttcagcattatcagaaggagccacc
ccacaagatttaaacaccatgctaaacacagtggggggacatcaagcagccatgcaaatg
ttaaaagagaccatcaatgaggaagctgcagaatgggatagagtgcatccagtgcatgca
gggcctattgcaccaggccagatgagagaaccaaggggaagtgacatagcaggaactact
agtacccttcaggaacaaataggatggatgacaaataatccacctatcccagtaggagaa
atttataaaagatggataatcctgggattaaataaaatagtaagaatgtatagccctacc
agcattctggacataagacaaggaccaaaggaaccctttagagactatgtagaccggttc
tataaaactctaagagccgagcaagcttcacaggaggtaaaaaattggatgacagaaacc
ttgttggtccaaaatgcgaacccagattgtaagactattttaaaagcattgggaccagcg
gctacactagaagaaatgatgacagcatgtcagggagtaggaggacccggccataaggca
agagttttggctgaagcaatgagccaagtaacaaattcagctaccataatgatgcagaga
ggcaattttaggaaccaaagaaagattgttaagtgtttcaattgtggcaaagaagggcac
acagccagaaattgcagggcccctaggaaaaagggctgttggaaatgtggaaaggaagga
caccaaatgaaagattgtactgagagacaggctaattttttaagggaagatctggccttc
ctacaagggaaggccagggaattttcttcagagcagaccagagccaacagccccaccaga
agagagcttcaggtctggggtagagacaacaactccccctcagaagcaggagccgataga
caaggaactgtatcctttaacttccctcaggtcactctttggcaacgacccctcgtcaca
ataaagataggggggcaactaaaggaagctctattagatacaggagcagatgatacagta
ttagaagaaatgagtttgccaggaagatggaaaccaaaaatgatagggggaattggaggt
tttatcaaagtaagacagtatgatcagatactcatagaaatctgtggacataaagctata
ggtacagtattagtaggacctacacctgtcaacataattggaagaaatctgttgactcag
attggttgcactttaaattttcccattagccctattgagactgtaccagtaaaattaaag
ccaggaatggatggcccaaaagttaaacaatggccattgacagaagaaaaaataaaagca
ttagtagaaatttgtacagagatggaaaaggaagggaaaatttcaaaaattgggcctgaa
aatccatacaatactccagtatttgccataaagaaaaaagacagtactaaatggagaaaa
ttagtagatttcagagaacttaataagagaactcaagacttctgggaagttcaattagga
ataccacatcccgcagggttaaaaaagaaaaaatcagtaacagtactggatgtgggtgat
gcatatttttcagttcccttagatgaagacttcaggaagtatactgcatttaccatacct
agtataaacaatgagacaccagggattagatatcagtacaatgtgcttccacagggatgg
aaaggatcaccagcaatattccaaagtagcatgacaaaaatcttagagccttttagaaaa
caaaatccagacatagttatctatcaatacatggatgatttgtatgtaggatctgactta
gaaatagggcagcatagaacaaaaatagaggagctgagacaacatctgttgaggtgggga
cttaccacaccagacaaaaaacatcagaaagaacctccattcctttggatgggttatgaa
ctccatcctgataaatggacagtacagcctatagtgctgccagaaaaagacagctggact
gtcaatgacatacagaagttagtggggaaattgaattgggcaagtcagatttacccaggg
attaaagtaaggcaattatgtaaactccttagaggaaccaaagcactaacagaagtaata
ccactaacagaagaagcagagctagaactggcagaaaacagagagattctaaaagaacca
gtacatggagtgtattatgacccatcaaaagacttaatagcagaaatacagaagcagggg
caaggccaatggacatatcaaatttatcaagagccatttaaaaatctgaaaacaggaaaa
tatgcaagaatgaggggtgcccacactaatgatgtaaaacaattaacagaggcagtgcaa
aaaataaccacagaaagcatagtaatatggggaaagactcctaaatttaaactgcccata
caaaaggaaacatgggaaacatggtggacagagtattggcaagccacctggattcctgag
tgggagtttgttaatacccctcccttagtgaaattatggtaccagttagagaaagaaccc
atagtaggagcagaaaccttctatgtagatggggcagctaacagggagactaaattagga
aaagcaggatatgttactaatagaggaagacaaaaagttgtcaccctaactgacacaaca
aatcagaagactgagttacaagcaatttatctagctttgcaggattcgggattagaagta
aacatagtaacagactcacaatatgcattaggaatcattcaagcacaaccagatcaaagt
gaatcagagttagtcaatcaaataatagagcagttaataaaaaaggaaaaggtctatctg
gcatgggtaccagcacacaaaggaattggaggaaatgaacaagtagataaattagtcagt
gctggaatcaggaaagtactatttttagatggaatagataaggcccaagatgaacatgag
aaatatcacagtaattggagagcaatggctagtgattttaacctgccacctgtagtagca
aaagaaatagtagccagctgtgataaatgtcagctaaaaggagaagccatgcatggacaa
gtagactgtagtccaggaatatggcaactagattgtacacatttagaaggaaaagttatc
ctggtagcagttcatgtagccagtggatatatagaagcagaagttattccagcagaaaca
gggcaggaaacagcatattttcttttaaaattagcaggaagatggccagtaaaaacaata
catactgacaatggcagcaatttcaccggtgctacggttagggccgcctgttggtgggcg
ggaatcaagcaggaatttggaattccctacaatccccaaagtcaaggagtagtagaatct
atgaataaagaattaaagaaaattataggacaggtaagagatcaggctgaacatcttaag
acagcagtacaaatggcagtattcatccacaattttaaaagaaaaggggggattgggggg
tacagtgcaggggaaagaatagtagacataatagcaacagacatacaaactaaagaatta
caaaaacaaattacaaaaattcaaaattttcgggtttattacagggacagcagaaatcca
ctttggaaaggaccagcaaagctcctctggaaaggtgaaggggcagtagtaatacaagat
aatagtgacataaaagtagtgccaagaagaaaagcaaagatcattagggattatggaaaa
cagatggcaggtgatgattgtgtggcaagtagacaggatgaggattag
atggccgccagggccagcgtgctgagcggcggcgagctggacaggtgggagaagatcagg
ctgaggcccggcggcaagaagaagtataagctgaagcacatcgtgtgggccagcagggag
ctggagaggttcgccgtgaaccccggcctgctggagaccagcgagggctgcaggcagatc
ctgggccagctgcagcccagcctgcagaccggcagcgaggagctgaggagcctgtacaac
accgtggccaccctgtactgcgtgcaccagaggatcgagatcaaggacaccaaggaggcc
ctggacaagatcgaggaggagcagaacaagtccaagaagaaggcccagcaggccgccgcc
gacaccggccacagcagccaggtgagccagaactaccccatcgtgcagaacatccagggc
cagatggtgcaccaggccatcagccccaggaccctgaacgcctgggtgaaggtggtggag
gagaaggccttcagccccgaggtgatccccatgttcagcgccctgagcgagggagccacc
ccccaggacctgaacaccatgctgaacaccgtgggcggccaccaggccgccatgcagatg
ctgaaggagaccatcaacgaggaggccgccgagtgggacagggtgcaccccgtgcacgcc
ggccccatcgcccccggccagatgagggagccccgcggcagcgacatcgccggcaccacc
agcaccctgcaggagcagatcggctggatgaccaacaacccccccatccccgtgggcgaa
atctacaagaggtggatcatcctgggcctgaacaagatcgtgaggatgtacagccccacc
agcatcctggatatcaggcagggccccaaagagcccttcagggactacgtggacaggttc
tacaagaccctgcgcgccgagcaggccagccaggaggtgaagaactggatgaccgagacc
ctgctggtgcagaacgccaaccccgactgcaagaccatcctgaaggccctgggacccgcc
gccaccctggaggagatgatgaccgcctgccagggcgtgggcggccccggccacaaggcc
agggtgctggccgaggccatgagccaggtgaccaacaccgccaccatcatgatgcagagg
ggcaacttcaggaaccagaggaagatggtgaagtgcttcaactgcggcaaggagggccac
accgccaggaactgccgcgcccccaggaagaagggctgctggaagtgcggcaaggagggc
caccagatgaaggactgcaccgagaggcaggctaattttagggaagatctggccttccta
caagggaaggccagggaattttcttcagagcagaccagagccaacagccccaccatttct
tcagagcagaccagagccaacagccccaccagaagagagcttcaggtctggggtagagac
aacaactccccctcagaagcaggagccgatagacaaggaactgtatcctttaacttccct
cagatcactctttggcaacgacccctcgtcacaataaagatcggtggccagctgaaggag
gccctgctggccaccggcgccgacgacaccgtgctggaggagatgagcctgcccggcagg
tggaagcccaagatgatcggcggcatcggcggcttcatcaaggtgaggcagtacgaccag
atcctgatcgagatctgcggccacaaggccatcggcaccgtgctggtgggacctacacct
gtgaacatcatcggcaggaacctgctgacccagatcggctgcaccctgaacttccccatc
agccccatcgagaccgtgcccgtgaagctgaagcccggcatggacggccctaaggtgaag
cagtggcccctgaccgaggagaagatcaaggccctggtggagatctgcaccgagatggag
aaggagggcaagatcagcaagatcggccccgagaacccctacaacacccccgtgttcgcc
atcaagaagaaggacagcaccaagtggaggaagctggtggacttcagggagctgaacaag
aggacccaggacttctgggaggtgcagctgggcatcccccaccccgccggcctgaagaag
aagaagagcgtgaccgtgctggacgtgggcgacgcctacttcagcgtgcccctggacgag
gacttcaggaagtatacccctttaagaccaatgacttacaaggcagctgtagatcttagc
cactttttaaaagaaaaggggggactggaagggctaattcactcccaaagaagacaagat
atccttgatctgtggatctaccacacacaaggctacttccctgatccaaggatgggtggc
aagtggtcaaaaagtagtgtggttggatggcctgctgtaagggaaagaatgagacgagct
gagccagcagcagatggggtgggagcagcatctcgagacctggaaaaacatggagcaatc
acaagtagcaatacagcagctaccaatgctgcttgtgcctggctagaagcacaagaggag
gaggaggtgggttttccagtcacacctcaagtaccattcctgtggatgggctacgagctg
caccccgacaagtggaccgtgcagcccatcgtgctgcccgagaaggacagctggaccgtg
aacgacattcagaagctggtgggcaagctgaactgggccagccagatctaccctggcatc
aaggtgaggcagctgtgcaagctgctgaggggcacaaaggctctgaccgaggtgatcccc
ctgaccgaggaggccgagctggagctggccgagaacagggagatcctgaaggagcccgtg
cacggcgtgtactacgaccccagcaaggacctgatcgccgagatccagaagcagggccag
ggccagtggacctaccagatctaccaggagcccttcaagaacctgaagaccggcaagtac
gcccgcatgcgcggcgcccacaccaacgacgtgaagcagctgaccgaggccgtgcagaag
atcaccaccgagagcatcgtgatctggggcaagactcctaagttcaagctgcccatccag
aaggagacctgggagacctggtggaccgagtactggcaggccacctggattcccgagtgg
gagttcgtgaacacccctcccctggtgaagctgtggtatcagctggagaaggagcccatc
gtgggcgccgagaccttctacgtggacggcgccgccaacagggagaccaagctgggcaag
gccggctacgtgaccaacaagggccgccagaaggtggtgcccctgaccaacaccaccaac
cagaagaccgagctgcaggctatctacctggccctgcaggactcaggcctggaggtgaac
atcgtgaccgacagccagtacgccctgggcatcatccaggcccagcccgacaagagcgag
agcgagctggtgaaccagatcatcgagcagctgatcaagaaggagaaggtgtacctggcc
tgggtgcccgcccacaagggcatcggcggcaacgagcaggtggacaagctggtgagcgcc
ggcatcaggaagatcctgttcctggacggcatcgacaaggcccaggacgagcacgagaag
taccacagcaactggagggctatggctagcgacttcaacctgcctcccgtggtggctaag
gagatcgtggccagcgccttcaccatccccagcatcaacaacgagacccccggcatccgc
taccagtacaacgtgctgccccagggctggaagggcagccccgccatcttccagagcagc
atgacaaagatcctggagcccttcaagaagcagaaccccgacatcgtgatctatcagtac
atggacgacctgtacgtgggcagcgacctggagatcggccagcacaggaccaagatcgag
gagctgaggcagcacctgctgaggtggggcctgaccacccccgacaagaagcaccagaag
gagcccccattcctgtggtaa
5' Endaagtagtgtgtgcccgtctgttgtgtgactctggtaactagagatccctcagaccctttt
3' End
Notesfusion protein consisting of the viral structural proteins and enzymes; cleaved by the viral protease into individual mature proteinsGenBank Accession# is not provided in the paper.GenBank Accession# AX306430 ( Sequence 4 from Patent WO0188141) is used.
Expression VectorpcDNA3.1+pcDNA3.1+
Assay MethodsELISA, Western BlotELISA, Western Blot
ResultsUndetectable.Significant increased.
Protein FunctionDNA recombination, RNA-dependent DNA replication, DNA binding, RNA binding, RNA-directed DNA polymerase activity
Recoding PurposeTo improve expression
Synthesized ByAuthors
Recoding MethodApply codon usage occuring most frequently in mammalian cells.
Publication Author(s)Wagner, R.; Graf, M.; Bieler, K.; Wolf, H.; Grunwald, T.; Foley, P.; Uberla, K.
Corresponding AuthorDr. Ralf Wagner
Corresponding AddressInstitut fur Medizinische Mikrobiologie and Hygiene, Universitat Regensburg, D-93053 Regensburg, Germany. ralf.wagner@klinik.uni-ragansburg.da
Publication Year2000
Publication TitleRev-independent expression of synthetic gag-pol genes of human immunodeficiency virus type 1 and simian immunodeficiency virus: implications for the safety of lentiviral vectors
AbstractThe safety of lentiviral vectors for clinical applications is still a major concern. The gag-pol expression plasmids and the lentiviral vectors used in previous studies contain homologous regions, which constitute a risk for recombination events. Synthetic gag-pol genes of human immunodeficiency virus type 1 (HIV-1) and simian immunodeficiency virus (SIV) were therefore constructed, in which the codon usage was optimized for expression in human cells without altering the amino acid sequences. The synthetic gag-pol genes allowed efficient expression of these genes in the absence of Rev and the 5' untranslated leader region. Both the HIV-1 and the SIV synthetic gag-pol expression plasmids could mediate transduction of an SIV vector into nondividing human cells with titers of about 10(6) transducing units/ml. Similar titers were obtained with a four-plasmid vector-packaging system based on HIV-1. Using a biological assay, homologous recombination events between the synthetic gag-pol expression plasmids and an SIV vector were undetectable and in comparison with a previously used gag-pol expression plasmid at least approximately 100-fold less frequent. By eliminating regions of homology and sequences involved in packaging, synthetic gag-pol genes should improve the safety profile of lentiviral vectors.
JournalHum Gene Ther. 11(17): 2403-13.
SummaryTo avoid the formation and subsequent transfer of recombinants between packaging constructs and the vector, synthetic gag-pol genes of HIV-1 and SIV were constructed by codon optimization to express in human cells without altering the amino acid sequences. According to the experimental results, these synthetic genes allowed the efficient expression of gag-pol in the absence of viral elements. The homologous recombination events between the synthetic gag-pol expression plasmids and an SIV vector were undetectable.
Comments
Discussion http://www.evolvingcode.net/forum/viewtopic.php?t=662
PubMed ID11096444
Submitter NameZin, Htar
Submitter Address1000 Hilltop Circle, Baltimore, MD 21250
Entry ConfirmationNo
 
 

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