Sequence
atgc intronic sequence ATGC exonic sequencegtatacatgttatttgttgattcatttccaagttttcattgggtttaatatcagttctatcttgacaagaagttgtttttgacagCAAGAGATATTCAGGCATGGGAATATGTGCCTCTTGGGCCTTTTCTTGGGAAGAGTTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0187g00300.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G12100.1 (Glycine max), 3'ss of exon 7
------------gtatacatgttatttgttgattcatttccaagttttcattgggtttaatatcagttctatc--ttgac-----aagaagttgtttttgacagCAAGAGATATTCAGGCATGGGAATATGTGCCTCTTGGGCCTTTTCTTGGGAAGAGTTTTG
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gtagttttccaattcaatatattatttatttatttatttatta-ttattattattattattattatgcccaataattgatgctctactgaattgtatttggcagCTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCTTTTCTTGGCAAGAGTTTTG
upper sequence: Vv00s0187g00300.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G01270.1 (Glycine max), 3'ss of exon 7
---gtatacatgttatttgttgattcatttccaagttttcattgggtt-taat----atcagttctatcttgacaagaagttgtttttgacagCAAGAGATATTCAGGCATGGGAATATGTGCCTCTTGGGCCTTTTCTTGGGAAGAGTTTTG
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gtagtttccaattcaatctctctctctctctctctctcttgttatgttatggtgctcaacaagtgatgctttatttgaa-ttgtatttggcagCTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCATTTCTTGGCAAGAGTTTTG
upper sequence: Vv00s0187g00300.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G12050.1 (Arabidopsis thaliana), 3'ss of exon 7
--------gtatacatgttatttgttgattcatttccaagttttcattgggtttaatatcagttctatcttgacaagaagttgtttttgacagCAAGAGATATTCAGGCATGGGAATATGTGCCTCTTGGGCCTTTTCTTGGGAAGAGTTTTG
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gtactcacttaactatagttttcgttgagtcatctttaa--cctgaccgggcatgac--cggttttttt------aaatgtttgttgttatagCTAGGGATATTCAGGCGTGGGAGTATGTACCTCTTGGTCCTTTCCTGGGGAAGAGTTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttcattgggtttaatatcagttctatcttgacaagaagttgtttttgacagCAAGAGATATTCAGGCATGGGAATATGTGCCTCTTGGGCCTTTTCTTGGGAAGAGTTTTG
tcttgac putative branch site (score: 3)
ttgttttt putative PPT
tttaatatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatacatgttatttgttgattcatttccaagttttcattgggtttaatatcagttctatcttgacaagaagttgtttttgacagCAAGAGATATTCAGGCATGGGAATATGTGCCTCTTGGGCCTTTTCTTGGGAAGAGTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA