Synthetic Gene DataBase
 

Synthetic Gene 118


 
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Field NameNatural GeneSynthetic Gene
SGDB Gene ID109118
GenBank AccessionAF286224AY181197
GenBank GI1356921737414026
Gene Nameenvenv
Gene Length (bp)26072607
Specieshuman Immunodeficiency Virus (HIV-1)Homo sapiens, Mus musculus
Strains96ZM651293T cells, mouse spleen cells
CDSatgagagtgagggagatactgaggaattggcaacgatggtggacatggggcatcttaggc
ttttggatgttaatgatttgtaatgtgtgggggaacttgtgggtcacagtctattatggg
gtacctgtgtggaaagaagcaaaaactactctattctgtgcatcagatgctaaatcatat
gagaaagaagtgcataatgtctgggctacacatgcctgtgtacccacagaccccaaccca
caagaaatagttttgggaaatgtaacagaaaattttaacatgtggaaaaatgacatggtg
gatcagatgcatgaggatataatcagtttatgggatcaaagcctaaagccatgtgtaaag
ttgaccccactctgtgtcactttaaattgtacagaggttaatgttaccagaaatgttaat
aatagcgtggttaataataccacaaatgttaataatagcatgaatggagacatgaaaaat
tgctctttcaacataaccacagaactaaaagataagaaaaagaatgtgtatgcacttttt
tataaacttgatatagtatcacttaatgagactgacgactctgagactggcaactctagt
aaatattatagattaataaattgtaatacctcagccctaacacaagcctgtccaaaggtc
tcttttgacccaattcctatacattattgtgctccagctggttatgcgattctaaagtgt
aataataagacattcaatgggacaggaccatgccataatgtcagcacagtacaatgtaca
catggaattaagccagtggtatcaactcaactactgttaaatggtagcctagcagaagaa
gggataataattagatctgaaaatctgacaaacaatgtcaaaacaataatagtacatctt
aatagatctatagaaattgtgtgtgtaagacccaacaataatacaagacaaagtataaga
ataggaccaggacaaacattctatgcaacaggagacataataggagacataagacaagca
cattgtaacattagtaggactaactggactaagactttacgagaggtaaggaacaaatta
agagaacacttccctaataaaaacataacatttaaaccatcctcaggaggggacctagaa
attacaacacatagctttaattgtagaggagaatttttctattgcaatacatcgggcctg
tttagtataaattatacagaaaataatacagatggtacacccatcacactcccatgcaga
ataagacaaattataaatatgtggcaggaagtaggacgagcaatgtacgcccctcccatt
gaaggaaacatagcatgtaaatcagatatcacagggctactattggttcgggatggagga
agcacaaatgatagcacaaataataacacagagatattcagacctgcaggaggagatatg
agggacaattggaggagtgaattgtataagtataaagtggtagaaattaagccattggga
atagcacccactgaggcaaaaaggagagtggtggagagagaaaaaagagcagtgggaata
ggagctgtgttccttgggttcttgggagcagcaggaagcactatgggcgcagcgtcaata
acgctgacggcacaggccagacaagtgttgtctggtatagtgcaacagcaaagcaatttg
ctgagggctatagaggcgcaacagcatctgttgcaactcacggtctggggcattaagcag
ctccagacaagagtcctggctatagaaagatacctaaaggatcaacagctcctaggactt
tggggctgctctggaaaactcatctgcaccactgctgtgccttggaacatcagttggagt
aataaatctaaaacagatatttgggataacatgacctggatgcagtgggatagagaaatt
agtaattacacaaacacaatatacaggttgcttgaggactcgcagagccagcaggagcaa
aatgaaaaagatttattagcattggacagttggaacaatctgtggaattggtttgacata
acaaaatggctgtggtatataaaaatatttataatgatagtaggaggcttaataggtttg
agaataatttttgctgtactctctatagtgaatagagttaggcagggatactcacctttg
tcgtttcagacccttatcccgaacccaagggaacccgacaggccaggaagaatcgaagaa
gaaggtggagagcaagacaaagagagatccgtgcgattagtgagcggattcttagcactt
gcctgggacgacctacggagcctgtgcctcttcagctaccaccgattgagagacttcata
ttggtgacagcgagagcggtggagcttctgagacgcagcagtctcaagggactacagagg
gggtgggaagcccttaagtatctgggaagtcttgtgcagtattggggtctggagctaaaa
aagagtgctattagtctacttgataccatagcaatagcagtagctgaaggaacagatagg
attatagaattaatacaaggaatttgtagagctatccgcaacgtacctagaagaataaga
cagggctttgaaacagctttgctataa
atgcgcgtgcgcgagatcctgcgcaactggcagcgctggtggacctggggcatcctgggc
ttctggatgctgatgatctgcaacgtgtggggcaacctgtgggtgaccgtgtactacggc
gtgcccgtgtggaaggaggccaagaccaccctgttctgcgccagcgacgccaagagctac
gagaaggaggtgcacaacgtgtgggccacccacgcctgcgtgcccaccgaccccaacccc
caggagatcgtgctgggcaacgtgaccgagaacttcaacatgtggaagaacgacatggtg
gaccagatgcacgaggacatcatcagcctgtgggaccagagcctgaagccctgcgtgaag
ctgacccccctgtgcgtgaccctgaactgcaccgaggtgaacgtgacccgcaacgtgaac
aacagcgtggtgaacaacaccaccaacgtgaacaacagcatgaacggcgacatgaagaac
tgcagcttcaacatcaccaccgagctgaaggacaagaagaagaacgtgtacgccctgttc
tacaagctggacatcgtgagcctgaacgagaccgacgacagcgagaccggcaacagcagc
aagtactaccgcctgatcaactgcaacaccagcgccctgacccaggcctgccccaaggtg
agcttcgaccccatccccatccactactgcgcccccgccggctacgccatcctgaagtgc
aacaacaagaccttcaacggcaccggcccctgccacaacgtgagcaccgtgcagtgcacc
cacggcatcaagcccgtggtgagcacccagctgctgctgaacggcagcctggccgaggag
ggcatcatcatccgcagcgagaacctgaccaacaacgtcaagaccatcatcgtgcacctg
aaccgcagcatcgagatcgtgtgcgtgcgccccaacaacaacacccgccagagcatccgc
atcggccccggccagaccttctacgccaccggcgacatcatcggcgacatccgccaggcc
cactgcaacatcagccgcaccaactggaccaagaccctgcgcgaggtgcgcaacaagctg
cgcgagcacttccccaacaagaacatcaccttcaagcccagcagcggcggcgacctggag
atcaccacccacagcttcaactgccgcggcgagttcttctactgcaacaccagcggcctg
ttcagcatcaactacaccgagaacaacaccgacggcacccccatcaccctgccctgccgc
atccgccagatcatcaacatgtggcaggaggtgggccgcgccatgtacgccccccccatc
gagggcaacatcgcctgcaagagcgacatcaccggcctgctgctggtgcgcgacggcggc
agcaccaacgacagcaccaacaacaacaccgagatcttccgccccgccggcggcgacatg
cgcgacaactggcgcagcgagctgtacaagtacaaggtggtggagatcaagcccctgggc
atcgcccccaccgaggccaagcgccgcgtggtggagcgcgagaagcgcgccgtgggcatc
ggcgccgtgttcctgggcttcctgggcgccgccggcagcaccatgggcgccgccagcatc
accctgaccgcccaggcccgccaggtgctgagcggcatcgtgcagcagcagagcaacctg
ctgcgcgccatcgaggcccagcagcacctgctgcagctgaccgtgtggggcatcaagcag
ctgcagacccgcgtgctggccatcgagcgctacctgaaggaccagcagctgctgggcctg
tggggctgcagcggcaagctgatctgcaccaccgccgtgccctggaacatcagctggagc
aacaagagcaagaccgacatctgggacaacatgacctggatgcagtgggaccgcgagatc
agcaactacaccaacaccatctaccgcctgctggaggacagccagagccagcaggagcag
aacgagaaggacctgctggccctggacagctggaacaacctgtggaactggttcgacatc
accaagtggctgtggtacatcaagatcttcatcatgatcgtgggcggcctgatcggcctg
cgcatcatcttcgccgtgctgagcatcgtgaaccgcgtgcgccagggctacagccccctg
agcttccagaccctgatccccaacccccgcgagcccgaccgccccggccgcatcgaggag
gagggcggcgagcaggacaaggagcgcagcgtgcgcctggtgagcggcttcctggccctg
gcctgggacgacctgcgcagcctgtgcctgttcagctaccaccgcctgcgcgacttcatc
ctggtgaccgcccgcgccgtggagctgctgcgccgcagcagcctgaagggcctgcagcgc
ggctgggaggccctgaagtacctgggcagcctggtgcagtactggggcctggagctgaag
aagagcgccatcagcctgctggacaccatcgccatcgccgtggccgagggcaccgaccgc
atcatcgagctgatccagggcatctgccgcgccatccgcaacgtgccccgccgcatccgc
cagggcttcgagaccgccctgctgtaa
5' End
3' End
Notes
Expression VectorpV1JpV1J
Assay Methodsautoradiography, western blot, ELISpot, ELISAautoradiography, western blot, ELISpot, ELISA
ResultsUndetectable.Significant increase.
Protein Functionenvelope protein.
Recoding PurposeTo improve expression
Synthesized ByAuthors
Recoding MethodThe codon usage of the major 96ZM651.8 gene sequences was transcribed manually to that of highly
expressed human genes by changing third-codon positions from A or T to G or C residues respectively.
Publication Author(s)Gao, F.; Li, Y.; Decker, J. M.; Peyerl, F. W.; Bibollet-Ruche, F.; Rodenburg, C. M.; Chen, Y.; Shaw, D. R.; Allen, S.; Musonda, R.; Shaw, G. M.; Zajac, A. J.; Letvin, N.; Hahn, B. H.
Corresponding AuthorBeatrice H. Hahn
Corresponding AddressDepartment of Medicine, Duke University Medical Center, Durham, North Carolina 27710, USA.
Publication Year2003
Publication TitleCodon usage optimization of HIV type 1 subtype C gag, pol, env, and nef genes: in vitro expression and immune responses in DNA-vaccinated mice
AbstractCodon usage optimization of human immunodeficiency virus type 1 (HIV-1) structural genes has been shown to increase protein expression in vitro as well as in the context of DNA vaccines in vivo; however, all optimized genes reported thus far are derived from HIV-1 (group M) subtype B viruses. Here, we report the generation and biological characterization of codon usage-optimized gag, pol, env (gp160, gp140, gp120), and nef genes from a primary (nonrecombinant) HIV-1 subtype C isolate. After transfection into 293T cells, optimized subtype C genes expressed one to two orders of magnitude more protein (as determined by immunoblot densitometry) than the corresponding wild-type constructs. This effect was most pronounced for gp160, gp140, Gag, and Pol (>250-fold), but was also observed for gp120 and Nef (45- and 20-fold, respectively). Optimized gp160- and gp140-derived glycoproteins were processed, incorporated into virus particles, and mediated virus entry when expressed in trans to complement an env-minus HIV-1 provirus. Mice immunized with optimized gp140 DNA developed antibody as well as CD4+ and CD8+ T cell immune responses that were orders of magnitude greater than those of mice immunized with wild-type gp140 DNA. These data confirm and extend previous studies of codon usage optimization of HIV-1 genes to the most prevalent group M subtype. Our panel of matched optimized and wild-type subtype C genes should prove valuable for studies of protein expression and function, the generation of subtype-specific immunological reagents, and the production of DNA-based sub-unit vaccines directed against a broader spectrum of viruses.
JournalAIDS Res Hum Retroviruses. 19(9): 817-23.
SummaryThe authors reported the generation and biological characterization of codon usage-optimized gag, pol, env (gp160, gp140, gp120), and nef genes from a primary HIV1 subtype C isolate. The codon usage of the major 96ZM651.8 gene sequences was transcribed manually to that of highly expressed human genes by changing third-codon positions from A or T to G or C residues respectively. None of these substitutions resulted in changes of the encoded protein sequences. Experiments were done both in vitro and vivo for the expression levels and for cellular immune responses. The experimental results showed that the codon optimized genes increased the expression levels as well as cellular immune responses.
Comments
Discussion http://www.evolvingcode.net/forum/viewtopic.php?t=660
PubMed ID14585212
Submitter NameZin, Htar
Submitter Address1000 Hilltop Circle, Baltimore, MD 21250
Entry ConfirmationNo
 
 

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