Sequence
atgc intronic sequence ATGC exonic sequencegcaagaacactattctttcttcccactgcaccaaggttgcaactgtttatccagtttgatgttagtttttgcaaactgacctggagtttggcattttgcagAGAATGATGACAGAAGAACCTGAGAAATATCAACGAATGCTTCAGAATCTCATTTTTAGAGCTCAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g00680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G459642_T04 (Zea mays), 3'ss of exon 3
gcaagaacactattctttcttcccactgcaccaaggttgcaactgtttatccagtttgatgttagtttt--tgcaaactgacctggagtttggcat-tttgcagAGAATGATGACAGAAGAACCTGAGAAATATCAACGAATGCTTCAGAATCTCATTTTTAGAGCTCAGCAG
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---------------------------gtatgattgaagcaattgctgattca--ttgctgatagttctactccattttgccttaacacaacctgtgttaacagAGAATGATGACAGAGGAACCAGAGATATACCAACGGATGCTTCAAAGCCTCATCTCAAAAGCTCAACAG
upper sequence: Vv13s0019g00680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA20G23240.1 (Glycine max), 3'ss of exon 18
--gcaagaacactattct----ttcttcccactgcaccaa---ggttgcaactgtt-tatccagtttg-atgttagtttttgcaaactgacctg------gagtttggcattttgcagAGAATGATGACAGAAGAACCTGAGAAATATCAACGAATGCTTCAGAATCTCATTTTTAGAGCTCAGCAG
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gtggcatattattcttctgcttttcttctgaaggcatgaatttgatttcattttttgtgttgatcatgtgtattggtccataaatttcatcctttgtaacgatttccctttactgcagCGAATGATGACCGAGAGTCCTGAAAAATATCAACACATGCTTCAGAATCTTCTTTTTAAAGCTCAGCAG
upper sequence: Vv13s0019g00680.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA10G43560.2 (Glycine max), 3'ss of exon 15
gcaagaacactattctttcttcccactgcaccaaggttgcaactgtttatccagtttgatgttagtttttgcaaactgacctggagtttggcattttgcagAGAATGATGACAGAAGAACCTGAGAAATATCAACGAATGCTTCAGAATCTCATTTTTAGAGCTCAGCAG
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gcatgaatttgatttcatttttttgt---------gttgatcatgtgtattaggttca----taaatttcgtcctttgtaacg-atttccctttactgcagCGAATGATGACTGAGAGTCCAGAAAAATATCAACACATGCTTCAGAATCTTCTTTTTAAAGCTCAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatccagtttgatgttagtttttgcaaactgacctggagtttggcattttgcagAGAATGATGACAGAAGAACCTGAGAAATATCAACGAATGCTTCAGAATCTCATTTTTAGAGCTCAGCAG
aactgac putative branch site (score: 2)
ttagttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagaacactattctttcttcccactgcaccaaggttgcaactgtttatccagtttgatgttagtttttgcaaactgacctggagtttggcattttgcagAGAATGATGACAGAAGAACCTGAGAAATATCAACGAATGCTTCAGAATCTCATTTTTAGAGCTCAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA