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Caenorhabditis elegans Repeat Maps


Name
Last modified
Size
CEmapI.gz
07-Mar-2016 05:19
227K
CEmapII.gz
07-Mar-2016 05:19
178K
CEmapIII.gz
07-Mar-2016 05:19
206K
CEmapIV.gz
07-Mar-2016 05:19
210K
CEmapV.gz
07-Mar-2016 05:19
254K
CEmapX.gz
07-Mar-2016 05:19
146K

Transposable elements in the C. elegans chromosomes: readme - GIRI
DNA sequences of the C. elegans chromosomes I,II,III,IV,V and X have
been downloaded from WormBase in June 2001.

chromosome    length bp
_______________________
CE_I         14,972,282
CE_II        15,173,999
CE_III       13,829,314
CE_IV        17,450,863
CE_V         20,914,693
CE_VI        17,748,731 

The "November 2001" version of the C. elegans 
section (celrep.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 BLAST and CENSOR.

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 C. elegans section of The Transposon Pub.

Reference: Kapitonov, V.V. and Jurka, J. (2002) Distribution of transposable and repetitive elements in the C. elegans chromosomes, www.girinst.org/downloads/repeatmaps/C.Elegans



© 2001-2018 - Genetic Information Research Institute

© 2001-2018 - Genetic Information Research Institute