PRIGEN
Database of Chimpanzee cDNAs

Updated on Nov 13, 2018

Information

PRIGEN (PRImate GENes) is a database of chimpanzee (Pan troglodytes verus) cDNAs. The cDNA sequences were derived from full-length cDNA (FLcDNA) libraries of various tissues using the oligo-capping method. We first sequenced 5'-ends of randomly selected clones from the libraries and then started full-length sequencing. The sequences were annotated using similarity searches against NCBI human RefSeq transcripts. PRIGEN currently provides keyword and BLAST searches against 14,004 5'-end cDNA (5'-EST) sequences.

Contents

Keyword search

BLAST search

Library data

Technical information

Download

Chimpanzee FLcDNAs (flcdna_90.fas.gz, 52 KB)
Sakate et al. (2007) and Osada and Wu (2005)
[Acc# AB188273-AB188288 and AB222102-AB222175, 90 sequences]

Chimpanzee 5'-ESTs (est_1947.fas.gz, 244 KB)
Sakate et al. (2003)
[Acc# AU296732-AU298678, 1,947 sequences]

References

Whole-genome sequencing of tibetan macaque (Macaca Thibetana) provides new insight into the macaque evolutionary history.
Fan Z, Zhao G, Li P, Osada N, Xing J, Yi Y, Du L, Silva P, Wang H, Sakate R, Zhang X, Xu H, Yue B, Li J.
Mol Biol Evol. 31: 1475-89 (2014)
NCBI Sequence Read Archive: SRP032525

Whole-genome sequencing and analysis of the Malaysian cynomolgus macaque (Macaca fascicularis) genome.
Higashino A, Sakate R, Kameoka Y, Takahashi I, Hirata M, Tanuma R, Masui T, Yasutomi Y, Osada N.
Genome Biol. 13: R58 (2012)
DDBJ Sequence Read Archive: DRA000430
macaque_SNV.zip (70 MB)

Mapping of chimpanzee full-length cDNAs onto the human genome unveils large potential divergence of the transcriptome.
Sakate R, Suto Y, Imanishi T, Tanoue T, Hida M, Hayasaka I, Kusuda J, Gojobori T, Hashimoto K, Hirai M.
Gene 399: 1-10 (2007)
Supplementary_files.tar.gz (2.4 MB)

Inferring the Mode of Speciation From Genomic Data. A Study of the Great Apes.
Osada N, Wu CI.
Genetics 169: 259-64 (2005)

Analysis of 5'-End Sequences of Chimpanzee cDNAs.
Sakate R, Osada N, Hida M, Sugano S, Hayasaka I, Shimohira N, Yanagi S, Suto Y, Hashimoto K, Hirai M.
Genome Res. 13: 1022-6 (2003)

Links

Laboratory of Rare Disease Resource Library | National Institutes of Biomedical Innovation, Health and Nutrition

JCRB Gene Bank

Macaca fascicularis cDNA database (QFbase)

H-InvDB Evola - Ortholog database of human and other vertebrates

H-InvDB G-compass - Comparative genome browser of human and other vertebrates


Copyright 2001-2018 Ryuichi Sakate.

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