Sequence
atgc intronic sequence ATGC exonic sequencegtttgttattattattgtattttggttttgatttatgggttttgcttggttttctccgatgatattggaatttgatcttgggtggttgatttgtttagGTACGCCAGCAGAGGTTTCATCTGGGATTCCATTGCCTGATAAGAAGTCACTGGAGTTGATTCTTGACAAACTTCAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g00610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G10890.1 (Glycine max), 3'ss of exon 1
gtttgttattattattgtattttggttttgatttatgggttttgcttggttt--tctccgatgatattggaatttgatcttgggtggttgatttgtttagGTACGCCAGCAGAGGTTTCATCTGGGATTCCATTGCCTGATAAGAAGTCACTGGAGTTGATTCTTGACAAACTTCAGAA
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gatgactgctgaaagggtactagtgattttgtttctgcatcgtcctttgtgtgttttctcatcaatttgtttttttgtttttgtttttttttactggtagGAGCTCCGGTGATTCTTCAATCTGGGATTCCATTGCCTGATAAGAGGACTCTGGAATTGATACTTGACAAGCTTCAGAA
upper sequence: Vv19s0090g00610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G10850.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------------gtttgttattattattgtattttggttttgatttatgggttt-tgcttggttttctccgatgatattgga-atttgatcttgggtggttgatttgtttagGTACGCCAGCAGAGGTTTCATCTGGGATTCCATTGCCTGATAAGAAGTCACTGGAGTTGATTCTTGACAAACTTCAGAA
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gttcgtgtgatttttattggggtactttgttttgaggttgtgggtgttagtttatatataagttgaaaagaaaaaagtgatgactgctgaaag--ggtgctagtgtttgtgtttctgcattgtcctttgtg-tgttctcatctatttgcttctttttttttcactg--ttagGAGCTCCGGTGATTCTTCAATCTGGGATTCCGTTGCCTGATAAGAGGACTCTGGAATTGATCCTTGACAAGCTTCAGAA
upper sequence: Vv19s0090g00610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G55040.2 (Arabidopsis thaliana), 3'ss of exon 2
gtttgttattattattgtattttggttttgatttatgggttttgcttggtttt-ctccgatgatattggaatttgatcttgg-gtggttgat-ttgtttagGTACGCCAGCA-GAGGTTTCATCTGGGATTCCAT---TGCCTGATAAGAAGTCACTGGAGTTGATTCTTGACAAACTTCAGAA
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gtatgttgcattttctgtgtt---actttgtgtttagagctttgattatcatgactaatctcatctctcagtctgctttggttgtcgttcttgttgtattagGGAATCAGTGTGATCATTCTTCAGAAACAACACCTATCCTTGACAAGAAGTCTTTGGAGTTGATTCTTGACAAACTTCAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttggttttctccgatgatattggaatttgatcttgggtggttgatttgtttagGTACGCCAGCAGAGGTTTCATCTGGGATTCCATTGCCTGATAAGAAGTCACTGGAGTTGATTCTTGACAAACTTCAGAA
ggttgat putative branch site (score: 5)
tttgttt CT-rich tract
atttgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttattattattgtattttggttttgatttatgggttttgcttggttttctccgatgatattggaatttgatcttgggtggttgatttgtttagGTACGCCAGCAGAGGTTTCATCTGGGATTCCATTGCCTGATAAGAAGTCACTGGAGTTGATTCTTGACAAACTTCAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT