The following sequences were identified as major repeats in the chicken genome:

Name
Size [bp]
Description
Birddawg_full_chr01-1
5838
full-length gypsy LTR retrotansposon
Birddawg_LTR-A
338
gypsy solo-LTR
Birddawg_LTR-B
296
gypsy solo-LTR
Birddawg_LTR-C
306
gypsy solo-LTR
Birddawg_LTR-D
329
gypsy solo-LTR
Birddawg_LTR-E
338
gypsy solo-LTR
Birddawg_LTR-G
307
gypsy solo-LTR
Charlie_Galluhop_fusion
1229
fusion of 2 class 2 elements
CR1_B_mother_chr03
4081
full-length CR1 element
CR1_F_chr01_copy
6061
full-length CR1 element
CR1_F_mother_chr06
5441
full-length CR1 element
Galluhop_consensus
338
mariner non-autonomous deletion derivative
Galluhop_mother-203
1312
degenerated full-length mariner element
Galluhop_mother-241
1167
degenerated full-length mariner element
Galluhop_mother-248
1300
degenerated full-length mariner element
Galluhop_mother-48
1114
degenerated full-length mariner element
Galluhop_mother-56
1334
degenerated full-length mariner element
Galluhop_mother-82
1290
degenerated full-length mariner element
Galluhop_mother-consens
1298
consensus full-length mariner element
Hitchcock_consensus
543
putative solo-LTR
Kronos_consensus
6324
full-length gypsy LTR retrotansposon
Soprano_full_chr01-1
4674
full-length LTR retrotansposon

DNA and hypothetical protein sequences (FASTA files) of these repeats are available for download.

If you use the sequence data provided by this website in your analysis or for a publication, please cite the following paper:

Wicker, T., Robertson, J.S., Schulze S.R., Feltus, F.A., Magrini, V., Morrison, J.A., Mardis, E.R., Wilson, R.K., Peterson, D.G., Paterson, A.H. and Ivarie, R. (2004). The Repetitive Landscape of the Chicken Genome. Genome Research, in press.