Sequence
atgc intronic sequence ATGC exonic sequence...gtgtcttttttaattatattttcaatccttttgttttctttctgttaactctgctctatctgcttttagatttatcttttaaaatcttctgtccttgcagGTTGACATTTGTGTCTTTGTCTTTGATATCATGTTTGCTAATGGAAAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0006g02210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g49180.1 (Oryza sativa), 3'ss of exon 12
gtgtcttttttaattatattttcaatccttttgttttctttctgttaactctgctctatctgcttttagatttatcttttaaaatcttctgt-ccttgcagGTTGACATTTGTGTCTTTGTCTTTGATATCATGTTTGCTAATGGAAAACA
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gtggcagtacctattaggaatgcataatatgcttactaatccatcttttttttttgtaactgtgtcttt-tttatctgactatattttgactactttgcagGTAGACATTTGTGTGTTTGTTTTTGATATCATGTTCTGCAATGGACAAAG
upper sequence: Vv14s0006g02210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G53000.1 (Glycine max), 3'ss of exon 11
-gtgtc-ttttttaattatattttcaatccttttgttttctttctgttaactctgctctatctgcttttagatttatcttttaaaatcttctgtccttgcagGTTGACATTTGTGTCTTTGTCTTTGATATCATGTTTGCTAATGGAAAACA
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agtgggatttcttatctttctttgttcttctcttgttctctt-caactctgtttgcagttgaattctatggatttgt-ttctgatatcttctgttcatgcagGTGGATATTTGCATCTTTGTCTTTGATATCATGTTCGCAAATGGAGAGCA
upper sequence: Vv14s0006g02210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G09970.1 (Glycine max), 3'ss of exon 3
-gt-gtcttttttaattatattttcaatccttttgttttctttctgttaactctgctctatctgcttttagatttatcttttaaaatcttctgtccttgcagGTTGACATTTGTGTCTTTGTCTTTGATATCATGTTTGCTAATGGAAAACA
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agtaggatttcttatctttcttttttcttctctagttctctt-caactctgtttgctattgaattctctggatttgt-ttctgatatcttatgttcatgtagGTGGATATTTGCATCTTTGTCTTTGATATCATGTTTGCAAATGGAGAGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taactctgctctatctgcttttagatttatcttttaaaatcttctgtccttgcagGTTGACATTTGTGTCTTTGTCTTTGATATCATGTTTGCTAATGGAAAACA
tgttaac putative branch site (score: 2)
tcttctgtccttgc putative PPT
ttttagatttatcttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtcttttttaattatattttcaatccttttgttttctttctgttaactctgctctatctgcttttagatttatcttttaaaatcttctgtccttgcagGTTGACATTTGTGTCTTTGTCTTTGATATCATGTTTGCTAATGGAAAACA
- - - - - - - - - - - caatcct
- - - - - - - - - - - - - - - - - - -ctttctg