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Data name ⇅ Database name ⇅ DOI ⇅ Description of data contents ⇅ Data file ⇅ Simple search URL ⇅ Data acquisition method ⇅ Data analysis method ⇅ Number of data entries ⇅ Data detail
PIR search result KOME 10.18908/lsdba.nbdc00120-018

Results of blastx searches against the PIR protein database

 kome_pir_search_result.zip
(29 MB) 		http://togodb.biosciencedbc.jp/togodb/view/kome_pir_search_result#en

PIR Release 80.00 (December 31, 2004) was used for the searches.

Performed blastx searches against the PIR protein database.
The results are filtered with Expect values lower than 1e-10.

 1,549,409 entries
Data detail open_in_full
PLACE search result KOME 10.18908/lsdba.nbdc00120-015

Results of signal search against PLACE.
PLACE: cis-acting regulatory DNA elements Database

 kome_place_search_result.zip
(43 MB) 		http://togodb.biosciencedbc.jp/togodb/view/kome_place_search_result#en

The full-length cDNA clones were mapped to japonica rice genome sequences.
The cis-acting regulatory DNA elements were obtained from PLACE 22.0.

After mapping the cDNA clones to the japonica rice genome sequences, Cis-element analysis were performed against 1000-bp upstream regions of the site where the full-length cDNA clones were mapped.

 5,158,379 entries
Data detail open_in_full
Product annotations KOME 10.18908/lsdba.nbdc00120-010

Extracted the hits related to protein gene products or protein functions from GenBank blastn/blastx results.

 kome_product_annotation.zip
(815 KB) 		http://togodb.biosciencedbc.jp/togodb/view/kome_product_annotation#en

Performed blastn searches against Genbank nucleotide sequences and blastx searches against Genbank amino acid sequences.

Showing the entries related to protein gene products or protein functions in GenBank blastn/blastx results.
"Related to protein gene products or protein functions" is defined as follows:
The word "mRNA", "Protein" or "Gene" is included in the entry.

 24,184 entries
Data detail open_in_full
pSort search result KOME 10.18908/lsdba.nbdc00120-027

Results of protein subcellular localization predictions

 kome_psort_search_result.zip
(823 KB) 		http://togodb.biosciencedbc.jp/togodb/view/kome_psort_search_result#en

PSORT version 5.8 was used for the predictions.

Performed subcellular localization predictions using the PSORT program.

 147,789 entries
Data detail open_in_full
RMOS blastn result KOME 10.18908/lsdba.nbdc00120-013

Results of blastn searches against the Rice EST Microarray (G-Array)

 kome_rmos_blastn_result.zip
(74 KB) 		http://togodb.biosciencedbc.jp/togodb/view/kome_rmos_blastn_result#en

Rice genome sequences used for the searches were obtained from the Rice Microarray Opening Site (RMOS).

Performed blastn (blast 2.2.12) searches against the probe sequences on the Rice EST Microarray (G-Array).
The results are filtered with Expect values lower than 1e-10.

 5,024 entries
Data detail open_in_full
Data name Database name DOI Description of data contents Data file Simple search URL Data acquisition method Data analysis method Number of data entries Data detail