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TIGR Maize TA
Maize Repeat db
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TIGR maize BACs
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Maize Repeat Database

The first version of the Maize Repeat Database contained 485 characterized maize repeat sequences from the TIGR Cereal Repeat Database. To these we added repetitive sequences downloaded from GenBank and a file of retrotransposon sequences compiled by Phillip SanMiguel (Purdue University). In addition we searched our maize genomic assemblies (AZMs) to identify new repeats. Any sequence within an AZM that showed at least 80% identity over a minimum stretch of 100 bp with an entry in the TIGR Cereal Repeat Database was coded accordingly and added to the Maize Repeat Database.

The current version (Version 4.0) of the Maize Repeat Database is available for download. The database exists as three separate files: “characterized repeats” (623 sequences), uncharacterized repeats” (21,133 sequences), and “RECON-predicted repeats” (5035 sequences).

Click below to download:

Characterized maize repeat sequences

Uncharacterized maize repeat sequences

RECON-predicted maize repeat sequences

The table below provides a breakdown of the number of sequences in each repeat category for different versions of the Maize Repeat Database.


Repeat Category

V1.0

V2.0

V3.0

V4.0

Transposable Elements

 

 

 

 

     Retrotransposons

244

6,432

11,794

18,510

     Transposons

94

494

284

617

     MITES

46

293

265

816

Centromeric and Telomeric sequences

 

 

 

 

     Centromere-related

34

166

158

353

     Telomere-related

2

15

2

26

Ribosomal genes

21

253

139

273

Other repetitive sequences

 

 

 

 

     Known repetitive sequences

29

1,373

38

1,041

     Unknown repetitive sequences

15

95

92

102

     RECON-predicted repeats

0

0

0

5,053

Total # repeat sequences

485

9,121

12,772

26,791