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citrusgenome.jp - resources for Citrus genomics

Satsuma (or Satsuma mandarin, taxid 55188) is one of the major mandarin varieties of citrus that is produced in worldwide.
Our recent study revealed that it is a BC1 of another mandarin variety, Kishu (C. kinokuni hort. ex Tanaka, taxid 408488).

pedigree

This draft sequence was obtained by de novo assembly using a hybrid assembly approach that combines
short-read sequence, three mate-pair libraries at different insert sizes and long read sequence of PacBio.

gbrowse

Download

1. The compressed files of Satsuma draft sequences at here: unshiu.tar.gz
(MD5sum: 81babbb63e0e0ddb5f240cea6ad09204)

2. The compressed files of Satsuma pseudomolecule sequences with annotation at here: upm.tar.gz
(MD5sum: 4fab0224451155a7034df946359e1b9f)

3. Supplemental data files of the predicted genes of Satsuma:  Supplementals.zip
(MD5sum: 11e0967e6ef3cfb2c2cfffde33475926)

View information

Basic statistics of the draft sequence:

Strain Satsuma 'Miyagawa wase'
Assembly total size 359,652,061 bp
Total number of scaffolds 20,876
N50 size of scaffolds 386,404 bp
Longest scaffold 5,227,725 bp
G-C% 33.9 %
LTR retrotransposon 7,950
Gene 29,024
mRNA 37,970
Total size of nine pseudomolecules 189,555,198 bp

Citation:


Contact to: Dr. Tokurou Shimizu, e-mail: tshimizu [at] affrc [dot] go [dot] jp
*) Please replace [at] to "@" and [dot] to "." then remove extra spaces to obtain the correct email address.

Disclaimer: This draft sequences are offered as is. These sequences could be replaced without prior notification.