Sequence
atgc intronic sequence ATGC exonic sequencegtgagtccaggttttccacacatttcttttgtttttacaatcatattttgacctttgctgttttagcaaatctgttattagatgtagttgctggatgccaaatacgagctgctgattgatttatatttgtcatcctagGTTTATATGGAAATAAGATGTCCTGATGGTAGCGATGGAGGAAGGAGGAATATTTTTCCTGCAACTCATGAAGAGATCCATCCCACTGGAATGCTCAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0084g00600.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os10g35290.1 (Oryza sativa), 3'ss of exon 16
gtgagtccaggttttccacacatttcttttgtttttacaatcatattttgacctttgctgttttagcaaatctgttattagatgtagttgctggatgccaaatacgagctgctgattgatttatatttgtcatcctagGTTTATATGGAAATAAGATGTCCTGATGGTAGCGATGGAGGAAGGAGGAATATTTTTCCTGCAACTCATGAAGAGATCCATCCCACTGGAATGCTCAGTG
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------------------------------------------------------gttcccttttatccact---tcaatggtccta--tattagtttattattacaagatg---actaatttttcattct-acattagGCATTCATGGAAATACGATGCCCTGATGGTGGGGATGGTGGAAGAAACAAATTATTTCCTGCAACTCATGAAGAAATCCACCCTACAGCCATTCTTAGTG
upper sequence: Vv13s0084g00600.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G388892_T02 (Zea mays), 3'ss of exon 17
gtgagtccaggttttccacacatttcttttgtttttacaatcatattttgacctttgctgttttagcaaatctgttattagatgtagttgctggatgccaaatacgagctgctgattgatttatatttgtcatcctagGTTTATATGGAAATAAGATGTCCTGATGGTAGCGATGGAGGAAGGAGGAATATTTTTCCTGCAACTCATGAAGAGATCCATCCCACTGGAATGCTCAGTG
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-----------------------------------------------------gttgct--tttgatcaactccttattctttataat--cttcttaccgatagc---tcagtaatttattttgaaatctaatt-tagGCATTTATGGAGATACGGTGTCCTGATGGTGGGGATGGTGGGAGACAAGAACCATTTCCTGCAACTCATGAAGAGATCCACCCTACAGCTATTCTCAGTG
upper sequence: Vv13s0084g00600.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA13G26190.1 (Glycine max), 3'ss of exon 21
gtgagtccaggttttccacacatttcttttgttt-ttacaatcatattttgacctttgctgttttag-caaatctgttatt--agatgtagttgctggatgccaaata-----cgagctgctgattgatttatatttgtcatcctagGTTTATATGGAAATAAGATGTCCTGATGGTAGCGATGGAGGAAGGAGGAATATTTTTCCTGCAACTCATGAAGAGATCCATCCCACTGGAATGCTCAGTG
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---------gtcattatagatttttcttctgtatgttgtatacttgtttggagttattctaataaaggcatatctatctttatagagatgagtgatatgaacttaggatttgtcaaatttttaagtgttatgtatttttcttatcagGTTTTTATGGAAATTAGATGTCCTGATGGTGGGGATGGTGGAAGAAAAAGTTCATTTCCTGCAACTCACGAAGAAATTCATCCAACAGTAATGCTTAGTG
upper sequence: Vv13s0084g00600.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT1G29940.1 (Arabidopsis thaliana), 3'ss of exon 18
gtgagtccaggttttccacacatttcttttgtttttacaatcatattttgacctttgctg-ttttagcaaatctgttattagatgtag-ttgctggatgccaaatacgagctgctgattgatttatatttgtcatcctagGTTTATATGGAAATAAGATGTCCTGATGGTAGCGATGGAGGAAGGAGGAATATTTTTCCTGCAACTCATGAAGAGATCCATCCCACTGGAATGCTCAGTG
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-----------------------------------------------------gtagcaaatcctatcaatattatcttcatatccacctttcctggtatacaatcaaa--tgaaaagaaaaagat-tctaccaaaccagGTTTTTATGGAAATAAGCTGTCCTGATGGTGGAAATGGAGGAAGGAATAACTCTTCCCTAGCAACTCACGAGGAAATTCATCCAACCGGGATGATAAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtagttgctggatgccaaatacgagctgctgattgatttatatttgtcatcctagGTTTATATGGAAATAAGATGTCCTGATGGTAGCGATGGAGGAAGGAGGAATATTTTTCCTGCAACTCATGAAGAGATCCATCCCACTGGAATGCTCAGTG
tcatcct CT-rich tract
tgattgatttatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtccaggttttccacacatttcttttgtttttacaatcatattttgacctttgctgttttagcaaatctgttattagatgtagttgctggatgccaaatacgagctgctgattgatttatatttgtcatcctagGTTTATATGGAAATAAGATGTCCTGATGGTAGCGATGGAGGAAGGAGGAATATTTTTCCTGCAACTCATGAAGAGATCCATCCCACTGGAATGCTCAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC