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Table 2 Characterization of Satellite DNAs and LTR retrotransposons identified in the genome of Passiflora edulis

From: Low coverage sequencing for repetitive DNA analysis in Passiflora edulis Sims: citogenomic characterization of transposable elements and satellite DNA

Type analyse Cluster ID Reads Size (pb) Genome Proportion (%) GC (%) Classification/Localization Primers (5′ – 3′) Number acession GenBank
Based graphics CL 207
PeSat_1
128 0.01 49 Satellite
Colocalised region 5S rDNA
L-ATGCCTCACCCACTGTCTTT
R-TGTTTAAGGCGTTTCCTTGC
MF 401643
TAREAN CL 69
PeSat_2
342 0.16 59 Satellite
Colocalised region 45S rDNA
L-TGAGCAGTTCCACCGTGTATAG
R-ATGCACTCTGCGTACTAAACCA
MF 401645
CL 118
PeSat_3
145 0.06 57 Satellite
Subterminal
L-CAAAACGACCACTTGGGTTT
R-ATCCGTGCAATAGTCACCTACG
MF 401644
Protein domains tools CL 6 1086 1.32 47 Ty3/Gypsy/Chromovirus
Pericentromeric regions
L-GGAGCTCCAGTTTTGTTCGT
R-TGTCTGCAAAACAGTCCTCAA
MF 401635
CL 11 411 1.10 47 Ty3/Gypsy/Chromovirus
Disperse all chromosome
L-ACTGCCGCTCTCTCAGAATC
R-TGGCACATTCCGGTTATGTAT
MF 401636
CL 36 924 0.78 48 Ty3/Gypsy/Athila
Disperse all chromosome
L-CAGTATGCCTTGTGTTCGAG
R-TGCATATGAGTTTGTCCTACG
MF 401639
CL 43 484 0.67 45 Ty1/Copia/Angela
Disperse all chromosome
L-TTTCGGCTGAGTTTCAGAAG
R-GTGCAGCTCAGTAGGGGATA
MF 401642
CL 86 1123 0.32 33 Ty1/Copia/Maximus-Sire
Disperse most chromosome
L-AGCTGTGTTAACGGCTTCAG
R-ACTTGGGCATGCTAGTTTTG
MF 401640
CL 94 2274 0.28 35 Ty1/Copia/Maximus-Sire
Disperse all chromosome
L-CTTGTTGAACGGCCTAAGGA
R-ATTTGGCATCCTCCATCTTG
MF 401637
CL 135 946 0.11 46 Ty3/Gypsy/Athila
Disperse most chromosome
L-GCACTTCTCCCAGTTCAGGA
R-GGCGGTATGACAGTGGTTCT
MF 401638