AlyLTR {TE}R Documentation

LTR retrotransposons in Arabidopsis lyrata

Description

This data file contains the LTR retrotransposons in Arabidopsis lyrata.

Format

A data frame with 397 rows and 7 columns. Each row corresponds to a unique LTR retrotransposon, and each column corresponds to a feature of the LTR-RT. The columns are:

SeqID

LTR retrotransposon sequence ID

UngapedLen

Length of each LTR

Mismatch

Number of mismatches

Distance

Divergence, as defined by (# of mismatches) / (LTR length)

sup

Super family membership

GroupID

LTR retrotransposon Family ID

thaID

Family name matched in the LTR-RT families of A. thaliana

References

Lamesch, Philippe, Tanya Z. Berardini, Donghui Li, David Swarbreck, Christopher Wilks, Rajkumar Sasidharan, Robert Muller et al. "The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools." Nucleic acids research 40, no. D1 (2011): D1202-D1210.

Dai, X., Wang, H., Dvorak, J., Bennetzen, J., Mueller, H.-G. (2018+). "Birth and Death of LTR Retrotransposons in Aegilops tauschii"


[Package TE version 0.3-0 Index]