Sequence
atgc intronic sequence ATGC exonic sequence...taatgaaggattctataaattctccttccccaattagtttatttattcaactttaaacatcctgctcagtaatgttttagatgtgtcttacttttctcagATTGATGTTGAAAATCCATGTGTGATAATGAGTCAAGACAAAAGCAGAGAATTTTTGCATTCAGGGAATGACAAAGATAAATTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0013g00490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G025340_T02 (Zea mays), 3'ss of exon 4
taatgaaggattctataaattctccttccccaattagtttatttattcaactttaaacatcctgctcagtaatgt-----tttagatgtgtcttact--tttctcagATTGATGTTGAAAATCCATGTGTGATAATGAGTCAAGACAAAAGCAGAGAATTTTTGCATTCAGGGAATGACAAAGATAAATTCAAG
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-----aattgttttaatctttatcctttct--gctggattacttatttgtaatgtgattgccagatatatgttgtctgcattctgatgcatctgtgtgacttttcagATTGAAGTTGAAAACCCTTGTGTAATTATGAGTCAAGACAAAAGCAGAGAGTTTTTACATTCAGGAAATGACAAGGATAAGTTCAAG
upper sequence: Vv16s0013g00490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G61460.1 (Arabidopsis thaliana), 3'ss of exon 4
-----taatgaaggattctataaattctccttccccaattagtttatttattcaactttaaacatcctgctcagtaatgttttagatgtgtcttacttttctcagATTGATGTTGAAAATCCATGTGTGATAATGAGTCAAGACAAAAGCAGAGAATTTTTGCATTCAGGGAATGACAAAGATAAATTCAAG
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gtgagttttggccgttcattcaaaattttagaaagta-ttaagtgatatcagatacttggcatactcagtactgtattcttat---tatattttacatgtgt-agATTGATGTTGAAAATCCGTGTGTGGTAATGAGTCAAGACAAAAGCAGGGAGTTCTTACATTCTGGAAATGACAAAGATAAATTCAAG
upper sequence: Vv16s0013g00490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G07660.1 (Arabidopsis thaliana), 3'ss of exon 4
taatgaaggattctata-aattctccttccccaattagtttatttattcaactttaaacatcctgctca---gtaatgtt------ttagatgtgtcttacttttct------cagATTGATGTTGAAAATCCATGTGTGATAATGAGTCAAGACAAAAGCAGAGAATTTTTGCATTCAGGGAATGACAAAGATAAATTCAAG
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--gtgagcttttctcttcgatttaagattaaaagtatgatcatttatgttatatcagattttcgtgttatttgtggtattcattgcttggatctgtattatgctttcgttgactagATTGATGTTGAGAATCCCTGTGTGATAATGAGTCAAGACAAGAGCAGGGAGTTCTTACATTCTGGTAACGACAAAGATAAATTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaactttaaacatcctgctcagtaatgttttagatgtgtcttacttttctcagATTGATGTTGAAAATCCATGTGTGATAATGAGTCAAGACAAAAGCAGAGAATTTTTGCATTCAGGGAATGACAAAGATAAATTCAAG
gtcttac putative branch site (score: 3)
tgtcttacttttctc CT-rich tract
taatgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatgaaggattctataaattctccttccccaattagtttatttattcaactttaaacatcctgctcagtaatgttttagatgtgtcttacttttctcagATTGATGTTGAAAATCCATGTGTGATAATGAGTCAAGACAAAAGCAGAGAATTTTTGCATTCAGGGAATGACAAAGATAAATTCAAG
- - - - - - - - - - - -ccttccc