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BmTEdb specifications

Information


Unique identifier OMICS_07693
Name BmTEdb
Alternative name Bombyx mori Transposable Elements Database
Restrictions to use None
Database management system MySQL
Maintained No

Taxon


  • Invertebrates
    • Bombyx mori

Maintainer


This tool is not available anymore.

Publication for Bombyx mori Transposable Elements Database

BmTEdb citations

 (3)
call_split

The Origin and Evolution of Six Miniature Inverted Repeat Transposable Elements in Bombyx mori and Rhodnius prolixus

2013
Genome Biol Evol
PMCID: 3845634
PMID: 24115603
DOI: 10.1093/gbe/evt153
call_split See protocol

[…] Six nonautonomous DNA transposable elements (bm_648, Bmori_800.383, bm_701, bm_1364, bm_295 and bm_248) were obtained from BmTEdb (). Their copies were extracted with 500 bp flanking sequences using our Perl script. Then, these retrieved sequences were aligned using MUSCLE () to determine the exact boundary of these trans […]

library_books

Segmental duplications in the silkworm genome

2013
BMC Genomics
PMCID: 3735471
PMID: 23901934
DOI: 10.1186/1471-2164-14-521

[…] ://www.repeatmasker.org/, version open-3.3.0), we identified the high-copy repeats. The silkworm genome is rich in TEs (~35%) []. We used our own TE dataset as repeat database (http://gene.cqu.edu.cn/BmTEdb/) in the running of RepeatMasker. These reference contigs were masked at 10% divergence level from TEs. After that, all these high-copy repeats were deleted out of the sequences. The resulting […]

library_books

BmTEdb: a collective database of transposable elements in the silkworm genome

2013
PMCID: 3722987
PMID: 23886610
DOI: 10.1093/database/bat055

[…] Using the approaches above, we identified 1308 TE families in the silkworm genome and organized these families and their classification information into an easy-to-use web-based database, BmTEdb. The composition of BmTEdb can be found in . The BmTEdb web interface is organized into four functional sections, data browsing section, keywords search section, sequences analysis tools sectio […]

Citations

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BmTEdb institution(s)
State Key Laboratory of Silkworm Genome Biology, Southwest University, Chongqing, China

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