Sequence
atgc intronic sequence ATGC exonic sequence...atcttacagaagacaagtttctcattttaaaccctttctctggttttgatgtaatcatgtaaccgattcaaattagcgactcatatttcaaatggtgcagGTTCGTGCTCTTCAGAGGCTAGGCAGTCGTTTTGAGAACCTGTCTGGACATGAGAGATCTTGTATCTCATCAGGTCAACATAGAACAGGTCGTTGTACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0087g00420.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G35060.1 (Glycine max), 3'ss of exon 4
atcttacagaagacaagtttctcattttaaaccctttctctggttttgatg---taatcatgtaaccgattcaa-attagcgactcatatttcaaatggtgcagGTTCGTGCTCTTCAGAGGCTAGGCAGTCGTTTTGAGAACCTGTCTGGACATGAGAGATCTTGTATCTCATCAGGTCAACATAGAACAGGTCGTTGTACAT
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----taagacttgtaatttcttttctggaaacatctgtacttgttctctttccccatccctgcattttattcattgttaatgatgcacatttaaaatggtttagGTCCGTGCTCTTCAGAGGTTGGGTAGCCGGTTTGAAAATCTTTCTGGACATGACAGATCATGTATCTTATCTGGTCAACATAGAAATGGTCGTTGTGCAT
upper sequence: Vv02s0087g00420.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G35490.1 (Glycine max), 3'ss of exon 2
atcttacagaagacaagtttctcattttaaaccctttct-ctggttttgatgtaat--catgtaaccgattcaa-attagcgactcatatttcaaatggtgcagGTTCGTGCTCTTCAGAGGCTAGGCAGTCGTTTTGAGAACCTGTCTGGACATGAGAGATCTTGTATCTCATCAGGTCAACATAGAACAGGTCGTTGTACAT
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----tcaagacttgtaatttcttttcttgaaacatctctacttgttctctttcccttccctggattttgttcattgttaatgatgtacatttaaaatggtttagGTCCGTGCTCTTCAGCGGTTGGGTAGCCGGTTTGAAAATCTTTCTGGACATGACAGATCATGTATCTTATCTGGTCAACATAGAAATGGTCGTTGTGCAT
upper sequence: Vv02s0087g00420.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G08260.1 (Glycine max), 3'ss of exon 5
---atcttacagaagacaagtttctcattttaaaccctttctctggttttgatgtaatcatgtaaccgattcaaattagcgactcatatttcaaatggtgcagGTTCGTGCTCTTCAGAGGCTAGGCAGTCGTTTTGAGAACCTGTCTGGACATGAGAGATCTTGTATCTCATCAGGTCAACATAGAACAGGTCGTTGTACAT
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tataaacaataaaatgaaagactaagacttaaggttacttatttaaa---aatgtcctcacttgaaatttttcctttacttatttacatgtaaaattatttagGTTCGTGCTCTTCAGCGATTGGGCAGCCGGTTTGAAAATCTTTCTGGACATGATAGATCGTGCATCTTGTCTGGTCAACATAGAAATGGTCATTGTACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatgtaatcatgtaaccgattcaaattagcgactcatatttcaaatggtgcagGTTCGTGCTCTTCAGAGGCTAGGCAGTCGTTTTGAGAACCTGTCTGGACATGAGAGATCTTGTATCTCATCAGGTCAACATAGAACAGGTCGTTGTACAT
atgtaac putative branch site (score: 3)
atatttcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcttacagaagacaagtttctcattttaaaccctttctctggttttgatgtaatcatgtaaccgattcaaattagcgactcatatttcaaatggtgcagGTTCGTGCTCTTCAGAGGCTAGGCAGTCGTTTTGAGAACCTGTCTGGACATGAGAGATCTTGTATCTCATCAGGTCAACATAGAACAGGTCGTTGTACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - -aagacaa
- - - - - - - - - - - - - - - -ccctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaatta