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ncRNA:TE Relationship

Jumping sequences, Transposable Elements, are dispersed throughout plant genomes. They comprise high density, in terms of size, ploidy, and heterozygosity, and genome size, probably due to also a dynamic set of old and recent bursts of Transposable Elements (TEs) are common hallmarks of many plant genomes. In addition, TEs have been correlated with other sequences, such as ncRNAs. Several studies focus on efforts to understand how ncRNA: TE is involved. Based on this, we bring an analysis that contributes to the mapping of these overlaps in the genomes. In this way, helping to foster research and helping to clarify how this relationship plays out. Improving the annotation of TEs makes us better understand its role during the evolution of the genome. More in PlaNC-TE: a comprehensive knowledgebase of non-coding RNAs and transposable elements in plants.

Database Comparative

Comparison of ncRNA:TE overlap amount in four genomes, selected by no preference. Investing in standardized annotations and different tools improves in-silico data for further analysis. Details in O. sativa, M. acuminata, A. thaliana and M. esculenta.

Overlap region

Comparative

Figure 1 - Transposable Elements and Non-coding RNAs density in the chromosomes at O. sativa, M. acuminata, A. thaliana and M. esculenta.

ncRNA:TE Overlaps

Species ncRNAs TEs Overlaps (.tsv)
A. chinensis - - -
A. tauschii Download Download Download
A. trichopoda Download Download Download
A. halleri Download Download Download
A. lyrata Download Download Download
A. thaliana Download Download Download
B. vulgaris Download Download Download
B. distachyon Download Download Download
B. napus Download Download Download
B. oleracea Download Download Download
B. rapa Download Download Download
C. annuum - - -
C. reinhardtii Download Download Download
C. canephora - - -
C. crispus Download Download Download
C. capsularis Download Download Download
C. sativus Download Download Download
C. merolae - - -
C. cardunculus - - -
D. carota Download Download Download
D. rotundata Download Download Download
E. tef - - -
G. sulphuraria Download Download Download
G. max Download Download Download
G. raimondii Download Download Download
H. annuus Download Download Download
H. vulgare Download Download Download
L. perrieri Download Download Download
L. angustifolius Download Download Download
M. esculenta Download Download Download
M. polymorpha - - -
M. truncatula Download Download Download
M. acuminata Download Download Download
N. attenuata Download Download Download
O. barthii Download Download Download
O. brachyantha Download Download Download
O. glaberrima Download Download Download
O. glumipatula Download Download Download
O. indica Download Download Download
O. longistaminata Download Download Download
O. meridionalis Download Download Download
O. nivara Download Download Download
O. punctata Download Download Download
O. rufipogon Download Download Download
O. sativa Download Download Download
O. lucimarinus Download Download Download
P. hallii fil2 - - -
P. hallii hal2 - - -
P. vulgaris Download Download Download
P. patens Download Download Download
P. trichocarpa Download Download Download
P. persica Download Download Download
S. moellendorffii Download Download Download
S. italica Download Download Download
S. lycopersicum Download Download Download
S. tuberosum Download Download Download
S. bicolor Download Download Download
T. cacao Download Download Download
T. pratense Download Download Download
T. aestivum Download Download Download
T. dicoccoides Download Download Download
T. turgidum - - -
T. urartu Download Download Download
V. angularis Download Download Download
V. radiata Download Download Download
V. vinifera Download Download Download
Z. mays Download Download Download