Welcome to BmTEdb

BmTEdb is a collective database of transposable elements (TEs) in the silkworm (Bombyx mori) genome.

TEs are fragments of DNA that can insert into new chromosomal locations and often make duplicate copies of them in the process. Although first coined as 'junk DNA', now there is compelling evidence that TEs have contributed positively to the function and evolution of genes and genomes (Kidwell & Lisch 2001; Kazazian 2004).

In the silkworm(Bombyx mori), TEs composed approximately 40% of the whole genome (Osanai-Futahashi et al., 2008; Xia et al., 2008). Abundant strains of domesticated silkworms and availability of wild silkworm in fields provide a good opportunity to investigate the roles which TEs played during domestication. Using a combination of de novo, structure-based and homology-based approaches, we performed complete identification and classification of TEs in the silkworm genome and created this database, BmTEdb. We hope this database will contribute to the studies for silkworm TE biology and domestication dynamics.

Citation

If you wish to cite BmTEdb, please refer to our publication:

Xu,H.-E., Zhang,H.-H., Xia,T., et al. BmTEdb: a collective database of transposable elements in the silkworm genome. Database (2013) Vol. 2013: article ID bat055; doi:10.1093/database/bat055.

BmTEdb summary:

Class Order Superfamily number of entries
1 LTR Copia 23
Gypsy 121
Bel 73
Chimera LTR 2
Unknown LTR 119
LINE CR1 22
CRE 4
Daphne 18
I 27
Jockey 14
Kiri 1
L1 7
L2 12
LOA 1
Nimb 1
Proto2 4
R1 32
R2 1
R4 8
RTE 41
Vingi 2
Chimera LINE 11
Unknown LINE 264
SINE BM1 3
BM1-related 5
BmSer 1
tRNA 2
Unknown SINE 6
2 TIR Academ 4
Chapaev 4
EnSpm 1
Harbinger 9
hAT 11
ISL2EU 1
Tc1/Mariner 32
P 6
piggyBac 15
Sola 21
Transib 3
Zator 1
Chimera TIR 1
Unknown TIR 269
MITE MITE 19
Helitron Helitron 7
Other Other Other 79
in total 1308

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