Sequence
atgc intronic sequence ATGC exonic sequence...ttttgtgttgtgcatctaaaggcacatttaaactccattcttttcatctcatccatcattactttgtcaactgattgcttatcatttgtattttgtgaagCCTGGAGAAACCTTGAAGGACTTCTATAAGCGTACCAATTTGTACTGGCAAATGGCAGCACATGAGCACACTCAACACACTGGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os04g40740.3 (Oryza sativa), 3'ss of exon 9
--------------------------------------------------------------ttttgtgttgtgcatctaaaggcacatttaaact-ccattcttttcatctcatccatcattactttgtcaactgattgcttatcatttgtat-tttgtgaagCCTGGAGAAACCTTGAAGGACTTCTATAAGCGTACCAATTTGTACTGGCAAATGGCAGCACATGAGCACACTCAACACACTGGAAAG
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gtgatgttgtaatcaacattttttttgttctaaatttgtttgaagttgttccgacaaagtacatatactttgtttactcagaggaactcttggctgataatttgttacacacagttaacaattaaaaccatatatcactaattcccatattcacacttttaaagCCAGGAGAGTCACTAAAAGATTTCTACAAGAGAACGGATATGTACTGGCAGATGGCTGCATATGAGCACACTCAACACACTGGAAAG
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G100815_T01 (Zea mays), 3'ss of exon 14
--------------------------------------------------------------------------------ttttgtgttgtgcatctaaaggcacatttaaactccattcttt--tcatct-catccatcattactttgtcaactgattgcttat-----catttgtattttgtgaa-gCCTGGAGAAACCTTGAAGGACTTCTATAAGCGTACCAATTTGTACTGGCAAATGGCAGCACATGAGCACACTCAACACACTGGAAAG
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gtaatgttgtacttagttttgtttattttctgtcacttctagatttattgctttccttttcattagctggctcctgtccatatcatcatatgtctgttctcgaacaaatcatggccaaccattcgttacctgcagttaacaaaaccaagatattgttttgcttatattttcttttgtttattctgaaagCCTGGAGAATCACTGAGAGATTTCTACAAGAGGACAAATATGTACTGGCAAATGGCTGCCTATGAGCACACTCAACACACTGGAAAG
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA04G36770.1 (Glycine max), 3'ss of exon 17
------ttttgtgttgtgcatctaaaggcacatttaaactc-cattcttttcatctcatccatcattactttgtcaactgattgcttatcatttgtattttgtgaagCCTGGAGAAACCTTGAAGGACTTCTATAAGCGTACCAATTTGTACTGGCAAATGGCAGCACATGAGCACACTCAACACACTGGAAAG
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gtatctggttgtcatgtgcctttaaacgcatctctgggctttcaattagtatttttcttgtcccactgttttcttaattgaattcttgt----tgcatcc---aaagCCAGGAGAATCCTTGAAGGATTTCTACAGGCGTACAAATATGTATTGGCAAATGGCAGCCCATGAACATACTCAACACACTGGAAAA
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT5G50310.1 (Arabidopsis thaliana), 3'ss of exon 17
ttttgtgttgtgcatctaaaggcacatttaaactccattcttttcatctcatccatcattactttgtcaactgattgcttatcat-ttgtattttgtgaagCCTGGAGAAACCTTGAAGGACTTCTATAAGCGTACCAATTTGTACTGGCAAATGGCAGCACATGAGCACACTCAACACACTGGAAAG
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----gtaagattgtcttcgccatttccttttattctgttgtctgagaaggagattctgtttgaagctcaactaatt--tggtcatgttgttgtctttgaagCCTGGAGAAACTTTGAAGGATTTCTATAAGCGCACAAATATGTACTGGCAAATGGCTGCCTACGAGCATACCCAACATACTGGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctcatccatcattactttgtcaactgattgcttatcatttgtattttgtgaagCCTGGAGAAACCTTGAAGGACTTCTATAAGCGTACCAATTTGTACTGGCAAATGGCAGCACATGAGCACACTCAACACACTGGAAAG
aactgat putative branch site (score: 3)
ttatcatttgtatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgtgttgtgcatctaaaggcacatttaaactccattcttttcatctcatccatcattactttgtcaactgattgcttatcatttgtattttgtgaagCCTGGAGAAACCTTGAAGGACTTCTATAAGCGTACCAATTTGTACTGGCAAATGGCAGCACATGAGCACACTCAACACACTGGAAAG
- - - - - -gcatcta
- - - - - - - - - - - - - - - aactcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgattgc