Sequence
atgc intronic sequence ATGC exonic sequence...ttgagtgtttttgacttgagcagagttctggtatggagtctgtatcttgttcctccatccctatattcaacttagtttggcattttacatctttttgtagTCTGAGATGAAACTTTTTGGGGGTGACACTGAAGCACTTAAGCAGCACTTTGGGAAGAAAATCATGGAACTTGAGGAAGAGAAAAGAATTGTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os09g02650.1 (Oryza sativa), 3'ss of exon 12
ttgagtgtttttgacttgagcagagttc-tggtatggagtctgtatcttgttcctccatccctatattc---aacttagtttggcattttaca-tctttttgtagTCTGAGATGAAACTTTTTGGGGGTGACACTGAAGCACTTAAGCAGCACTTTGGGAAGAAAATCATGGAACTTGAGGAAGAGAAAAGAATTGTGCAG
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-----ttttaatggttcactgaatgtacatgcagtgacatgctactcttgttaatctgctcatgcttgccaagacctaccttaaattttctcaatttctttgcagTCTGAGATGAAAATGTATGGATCTGACACTGTTGCACTTAAACAACACTTTGGAAAGAAACTTTTGGAGCTTGAAGAAGAGAAAAGAGCTGTACAG
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G026218_T02 (Zea mays), 3'ss of exon 12
ttgagtgtttttgacttgagcag----agttctggtatggagtctgtatcttgttcctccatccctatattcaacttagtttggcattttacatctttttgtagTCTGAGATGAAACTTTTTGGGGGTGACACTGAAGCACTTAAGCAGCACTTTGGGAAGAAAATCATGGAACTTGAGGAAGAGAAAAGAATTGTGCAG
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-tgtttggtcaaagattgtaaagtttgaatttaggtagtaacactgaagttaattgttgtagtttc-caagaaacttacct--atatttatcaaacccctgcagTCTGAGATGAAAATGTATGGATGTGATACTGTTGCACTTAAGCAGCACTTCGGAAAGAAACTTATGGAGCTTGAAGAAGAGAAAAAAGCAGTACAG
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G15750.1 (Glycine max), 3'ss of exon 12
----ttgagtgtttttgacttgagcagagttctggtatggagtctgtatcttgttcctccatccctatattcaacttagtttggcattttacatctttttgtagTCTGAGATGAAACTTTTTGGGGGTGACACTGAAGCACTTAAGCAGCACTTTGGGAAGAAAATCATGGAACTTGAGGAAGAGAAAAGAATTGTGCAG
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gctttttgctatatcattctctattatgatcacagattcacagcagagagatgaaatttcaactgagtatctgattctatcgcccctttt----tttcttgcagTCTGAGATGAAGCTCATTGCAGTTGATACTGAAACACTCAAACAGCACTTCGGGAAGAAAATTTTGGAACTTGAGGAGGAGAAAAGAAAAGTGCAG
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA17G18540.1 (Glycine max), 3'ss of exon 8
---ttgagtgtttttgacttgagcagagttctggtatgg---agtctgtatcttgttcctccatccctatattcaacttagtttggcattttacatctttttgtagTCTGAGATGAAACTTTTTGGGGGTGACACTGAAGCACTTAAGCAGCACTTTGGGAAGAAAATCATGGAACTTGAGGAAGAGAAAAGAATTGTGCAG
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aaattaggcttttttttgctatatcattttctattatgatcacatcagagagatgaaatttcaactgagtatctgattctatc-gccctttt-----ttcttgcagTCTGAGATGAAGGTCATTGCAGTTGATACTGAAACACTCAAACAACACTTTGGGAAGAAAATTTTGGAACTTGAGGAGGAGAAAAGAAAAGTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgttcctccatccctatattcaacttagtttggcattttacatctttttgtagTCTGAGATGAAACTTTTTGGGGGTGACACTGAAGCACTTAAGCAGCACTTTGGGAAGAAAATCATGGAACTTGAGGAAGAGAAAAGAATTGTGCAG
ttttacatcttttt CT-rich tract
attttacatcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgagtgtttttgacttgagcagagttctggtatggagtctgtatcttgttcctccatccctatattcaacttagtttggcattttacatctttttgtagTCTGAGATGAAACTTTTTGGGGGTGACACTGAAGCACTTAAGCAGCACTTTGGGAAGAAAATCATGGAACTTGAGGAAGAGAAAAGAATTGTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
-tgagtgt
- - - - - -tgacttg
- - - - - - - - - - - - gttctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggcattt