Sequence
atgc intronic sequence ATGC exonic sequencegttactgtcattgtttctttcaattattactgctgtcttgattattgctgcaaaagttacagatatcatttggcttcaaatgaagttctaaaatccagttacaacttttagTCTGATTATGGAAGGGAGGTGCCGTTGTTTGAGGTGGATGCAACAGCTGTGGAGCCTGTATTTCAGAAACTATATTCCTACATATTTGACATGGATAATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g00200.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G03870.1 (Glycine max), 3'ss of exon 3
gttactgtcattgtttctttcaattattactgctgtcttgattattgctgcaaaagttacagatatcatttggcttcaaatgaagttctaaaatccagttacaacttttagTCTGATTATGGAAGGGAGGTGCCGTTGTTTGAGGTGGATGCAACAGCTGTGGAGCCTGTATTTCAGAAACTATATTCCTACATATTTGACATGGATAATA
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gtaactgtttttccttcttttttttaatgccgttttcttctgttttg--------attggaaatagcattt---------------tctaaaattta-ccacaacttgtagACTGAATTTGGAAGGGAGGTACCTTTGTTTGAAGTTGAGGCAACAGCTGTGGAGCCAATATTTCAAAGGCTGTACTCCTACATATTTGACATGGACAGTG
upper sequence: Vv05s0077g00200.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G36730.1 (Glycine max), 3'ss of exon 3
gttactgtcattgtttctttcaattattactgctgtcttgattattgctgcaaaagttacagatatcatttggcttcaaatgaagttctaaaatccagttacaacttttagTCTGATTATGGAAGGGAGGTGCCGTTGTTTGAGGTGGATGCAACAGCTGTGGAGCCTGTATTTCAGAAACTATATTCCTACATATTTGACATGGATAATA
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-------------------gtaaccgtttttcctttctttttttatgc--cattttcttctgttttgattggacatagcact---ttttaaagttta-ccacaacttgcagACTGAATTTGGAAGGGAGGTACCTTTGTTTGAAGTTGAGGCAACAGCTGTGGAGCCAGTATTTCAAAGGCTGTACTCCTACATATTTGACACGGACAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacagatatcatttggcttcaaatgaagttctaaaatccagttacaacttttagTCTGATTATGGAAGGGAGGTGCCGTTGTTTGAGGTGGATGCAACAGCTGTGGAGCCTGTATTTCAGAAACTATATTCCTACATATTTGACATGGATAATA
ttctaaa putative branch site (score: 2)
ctttt putative PPT
atatcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttactgtcattgtttctttcaattattactgctgtcttgattattgctgcaaaagttacagatatcatttggcttcaaatgaagttctaaaatccagttacaacttttagTCTGATTATGGAAGGGAGGTGCCGTTGTTTGAGGTGGATGCAACAGCTGTGGAGCCTGTATTTCAGAAACTATATTCCTACATATTTGACATGGATAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA