Arabidopsis thaliana Repeat Maps
Name |
Last modified |
Size |
ATmapI.gz |
07-Mar-2016 05:19 |
70K |
ATmapII.gz |
07-Mar-2016 05:19 |
77K |
ATmapIII.gz |
07-Mar-2016 05:19 |
80K |
ATmapIV.gz |
07-Mar-2016 05:19 |
58K |
ATmapV.gz |
07-Mar-2016 05:19 |
157K |
DNA sequences of the A. thaliana chromosomes I-V were downloaded from NCBI in November 2001) name length GenBank's gi and acc. num. ___________________________________________ AT_I 29640317 gi:15217430 NC_003070.1 AT_II 19643621 gi:15224037 NC_003071.1 AT_III 23333883 gi:15228160 NC_003074.1 AT_IV 17549528 gi:15233324 NC_003075.1 AT_V 26269328 gi:15237134 NC_003076.1 The "December 2001" version of the Arabidopsis thaliana section (athrep.ref) of Repbase Update was used for annotation of the chromosomes. The annotation shows localization of transposable elements in the chromosomes. These elements have been identified by using the BLAST and CENSOR searches. Each line in the annotation represents a chromosomal fragment that can be classified as a transposable or noncoding repetitive element. Every line is composed of 8 columns that, in order, represent the following data: 1. Chromosome 2. Fragment start position in the chromosome 3. Fragment end position in the chromosome 4. Name of a transposable or repetitive element in Repbase Update most similar to the fragment 5. Fragment start position in the Repbase update element 6. Fragment end position in the Repbase update element 7. Orientation of the element, 'd' for direct, 'c' for complement 8. Percent identity between the chromosomal fragment and transposable element from Repbase Update. DNA sequences of all annotated elements are available in the A. thaliana section of The Transposon Pub.
Reference: Kapitonov,V.V. and Jurka,J. (2002) Distribution of transposable and repetitive elements in the A. thaliana chromosomes, www.girinst.org/server/TransPub/ATinfo.html