Sequence
atgc intronic sequence ATGC exonic sequencegtaggtcattatcctattgagcagatatttttttatgattatgattatgattacgaacatggtatttttctcaatcttctttttttttttgtcataattttatattcgttagGGGACACTCTCTGATGGAAGAGTTGTTGCTGTAAAGCAACTATCTGTATCATCCCACCAAGGAAAGAATCCGTTTGTAACAGAGATTGCAACCATATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0055g00610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os08g10320.3 (Oryza sativa), 3'ss of exon 19
----------------------gtag-gtcattatcctattgagcagatatttttttatgattatgatta---tgattacgaacatggtatttttctc---aatcttctttttttttttgtcataattttatattcgttagGGGACACTCTCTGATGGAAGAGTTGTTGCTGTAAAGCAACTATCTGTATCATCCCACCAAGGAAAGAATCCGTTTGTAACAGAGATTGCAACCATATCAG
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gttgtctattttccctaatttaatactgtgaaattgcaattgaataattatctgatctgtattaaatatagatttcttgcaaacttgttggtctaccctcaaaatataaatgtaacgtaagtaaagttcttcctttggcagGGTATGCTACCTGATGGAAGAGTTATAGCTGTAAAACAACTTTCTCAATCATCCCATCAGGGGAAAAACCAGTTTGTGACAGAGGTTGCAACAATTTCTT
upper sequence: Vv12s0055g00610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G15200.1 (Glycine max), 3'ss of exon 19
gtaggtcattatcctattgagca-gatatttttttatgattatgattatgattacgaacatggtatttttctcaatcttctttttttttttgtcataattttatattcgttagGGGACACTCTCTGATGGAAGAGTTGTTGCTGTAAAGCAACTATCTGTATCATCCCACCAAGGAAAGAATCCGTTTGTAACAGAGATTGCAACCATATCAG
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----------ttcgagtcaattataatactttctttaacctaaaactaagaa-atatatatgttgctcatatagtaccaagagtaacactttttccctttttctctta--cagGGAACACTTGATGATGGAAGAGTTATCGCTGTGAAACAACTATCTGTACAATCCAATCAAGGAAAGAATCAGTTCATAGCTGAGATTGCCACTATCTCCG
upper sequence: Vv12s0055g00610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G25600.1 (Glycine max), 3'ss of exon 19
-gtaggtcat-tatcctattgagcagatatttttttatgattatgattatgattacgaacatggtatttttctcaatcttctttttttttttgtcataattttatattcgttagGGGACACTCTCTGATGGAAGAGTTGTTGCTGTAAAGCAACTATCTGTATCATCCCACCAAGGAAAGAATCCGTTTGTAACAGAGATTGCAACCATATCAG
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gatgaatcaaatcctttttctaatactcaatattttgagactaatattggaacta--aatcctttatttaagagaatattatttttcttttctt------------tcttctagGGGACACTTAATGATGGAAGAGTCATTGCTGTGAAACAACTATCTGTGGGATCCCATCAAGGAAAGAGCCAATTCATAACTGAGATTGCTACTATATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catggtatttttctcaatcttctttttttttttgtcataattttatattcgttagGGGACACTCTCTGATGGAAGAGTTGTTGCTGTAAAGCAACTATCTGTATCATCCCACCAAGGAAAGAATCCGTTTGTAACAGAGATTGCAACCATATCAG
tcaatcttcttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtcattatcctattgagcagatatttttttatgattatgattatgattacgaacatggtatttttctcaatcttctttttttttttgtcataattttatattcgttagGGGACACTCTCTGATGGAAGAGTTGTTGCTGTAAAGCAACTATCTGTATCATCCCACCAAGGAAAGAATCCGTTTGTAACAGAGATTGCAACCATATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA