Sequence
atgc intronic sequence ATGC exonic sequencegttagtactgccttatgccctctctgtggttaattgttgtttggttgttcactactctttgcttcaaatgttgaaaacccaattacagtctcttcttgtaaatacttttagtatacttcatttgtctacataatcaatttgtttcccctgaataacaaattcttctctctagGAACTTCTTGCTTTCTTACTGGATGGACTGCATGAAGATTTGAATCGTGTAAAACAAAAGCCATATATTGAAACAAAGGATTCAAATGGTCGCCCAGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g02760.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os10g07270.1 (Oryza sativa), 3'ss of exon 7
gttagtactgccttatgccctctctgtggttaattgttgtttggttgttcactactctttgcttcaaatgttgaaaacccaatt-acagtctcttcttgtaaatacttttagtatacttcatttgtctacataatcaatttgtttcccctgaataacaaattcttctctctagGAACTTCTTGCTTTCTTACTGGATGGACTGCATGAAGATTTGAATCGTGTAAAACAAAAGCCATATATTGAAACAAAGGATTCAAATGGTCGCCCAGATG
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---------------------------------------------------------------ttggataagctatatttatttgacaaaatttggcaatttagattgtt--cacattttgttaa---agaagattgatctgttacttattgccc-----ctcttttatgcagGAGTTACTTGCATTTCTATTGGATGGTCTGCATGAAGATCTCAACCGTGTGAAAAAGAAACCATATATTGAAGCAAAGGATGCCGATGGCCGTCCTGATG
upper sequence: Vv02s0025g02760.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G009655_T01 (Zea mays), 3'ss of exon 7
gttagtactgccttatgccctctctgtggttaattgttgtttggttgttcactactctttgcttcaaatgttgaaaacccaattacagtctcttcttgtaaatact--tttagtatacttcatttgtctacataatcaatttgtttcccctga--ataacaaattc--ttctctctagGAACTTCTTGCTTTCTTACTGGATGGACTGCATGAAGATTTGAATCGTGTAAAACAAAAGCCATATATTGAAACAAAGGATTCAAATGGTCGCCCAGATG
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-----------------------------------------------------------------------------ttgcaaagttctccatttatgtgaatatcaattttctggggtttgtggtaccac-tatttaatttgctcctcaagacaataataccctccctttgctatagGAGCTACTTGCGTTTCTGTTGGATGGTCTGCATGAAGATCTGAACCGTGTAAAAGAGAAACCATATATTGAGGCAAAAGATGCAGATGGCCGCCCAGATG
upper sequence: Vv02s0025g02760.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G31560.1 (Glycine max), 3'ss of exon 7
gttagtactgccttatgccctctctgtggttaattgttgtttggttgttcactactctttgcttcaaatgttgaaaacccaattacagtctcttcttgtaaatacttttagtatacttcatttgtctacataatcaatttgtttcccctgaataacaa--attcttctctctagGAACTTCTTGCTTTCTTACTGGATGGACTGCATGAAGATTTGAATCGTGTAAAACAAAAGCCATATATTGAAACAAAGGATTCAAATGGTCGCCCAGATG
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-------------------------------------------------------------------ctttgggttattttaaaattgactttcttcacgaagtcattga----acttcagcctttt-tatgatt--tttgtctgttctgagtaatgtgtatttgtttatttagGAATTGCTTGCTTTTTTATTGGATGGATTGCATGAAGATTTGAATCGTGTCAAACAAAAGCCTTACATTGAAATGAAGGACTCGGATGGTAGGCCAGATG
upper sequence: Vv02s0025g02760.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G36020.1 (Glycine max), 3'ss of exon 8
gttagtactgccttatgccctctctgtggttaattgttgtttggttgttcactactctttgcttcaaatgttgaaaacccaattacagtctcttcttgtaaatacttttagtatacttcatttgtctacataatcaatttgtttcccctgaataacaaattcttctctctagGAACTTCTTGCTTTCTTACTGGATGGACTGCATGAAGATTTGAATCGTGTAAAACAAAAGCCATATATTGAAACAAAGGATTCAAATGGTCGCCCAGATG
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-------------------------------------------------------------------atttt-aaaattgaccttcaccactaaattttagaagtcattga---acttaagtccttt-tatgagtgttgtctgttcttggagtaatgtatttgtttttttagGAATTGCTTGCCTTTTTATTGGATGGATTGCATGAAGATTTGAATCGTGTGAAACAAAAGCCTTACATTGAAATGAAGGACTCGGATGGTAGGCCAGATG
upper sequence: Vv02s0025g02760.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G10570.1 (Arabidopsis thaliana), 3'ss of exon 7
gttagtactgccttatgccctctctgtggttaattgttgtttggttgttcactactctttgcttcaaatgttgaaaacccaattacagtctcttcttgtaaatacttttagtatacttcatt-tgtctacataatcaatttgtttcccctgaataacaaattcttctctctagGAACTTCTTGCTTTCTTACTGGATGGACTGCATGAAGATTTGAATCGTGTAAAACAAAAGCCATATATTGAAACAAAGGATTCAAATGGTCGCCCAGATG
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---------------------------------------------------------------------------------------------gttagtcatttcctctaatctgtatgatggtgcataattaatcagattctttgttcctgacattg--ttgttgtct-tagGAACTGCTTGCTTTCTTATTAGATGGGCTGCATGAAGATTTGAATAAGGTCAAACGAAAACCTTACATCGAACTTAAAGATTCTGACAGTCGTCCGGATG
upper sequence: Vv02s0025g02760.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G10590.1 (Arabidopsis thaliana), 3'ss of exon 7
gttagtactgccttatgccctctctgtggttaattgttgtttggttgttcactactctttgcttcaaatgttgaaaacccaattacagtctcttcttgtaaatacttttagtatacttcatttgtctacataatcaatttgtttcccctgaataacaaattcttctctctagGAACTTCTTGCTTTCTTACTGGATGGACTGCATGAAGATTTGAATCGTGTAAAACAAAAGCCATATATTGAAACAAAGGATTCAAATGGTCGCCCAGATG
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-------------------------------------------gttagtcatttc-ctctaatctgtatgatggtg-cataattaaggtctttgttcctga-cattgttgttgt----------tctatgctatc---ctctttgac---agtattatattgttgtctc-agGAACTGCTTGCTTTCTTATTGGATGGGCTGCATGAAGATCTGAATAAGGTCAAACGAAAACCTTACATCGAACTTAAAGATTCTGACAGTCGTCCGGATG
upper sequence: Vv02s0025g02760.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G32850.1 (Arabidopsis thaliana), 3'ss of exon 7
gttagtactgccttatgccctctctgtggttaattgttgtttggttgttcactactctttgcttcaaatgttgaaaacccaattacagtctcttcttgtaaatacttttagtatacttcatttgtctacataatcaatttgtttcccctgaataacaaattcttctctctagGAACTTCTTGCTTTCTTACTGGATGGACTGCATGAAGATTTGAATCGTGTAAAACAAAAGCCATATATTGAAACAAAGGATTCAAATGGTCGCCCAGATG
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-------gtaagtcatgttctcca-------aaatggtttatggttaatcagcaag---taagacaaaatttgttgtgtcacttatggcttttttccttc--ctcttacactaggaaaccagtgccttcgttatgtcttcatgtatgat--atgttagctcattgtttccagGAAATGCTTGCTTTCTTATTGGATGGGCTTCATGAAGACTTGAACAAGGTAAAACGAAAACCTTATATTGAAGCTAAAGATTCAGATGGTCGTCCAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatttgtctacataatcaatttgtttcccctgaataacaaattcttctctctagGAACTTCTTGCTTTCTTACTGGATGGACTGCATGAAGATTTGAATCGTGTAAAACAAAAGCCATATATTGAAACAAAGGATTCAAATGGTCGCCCAGATG
gaataac putative branch site (score: 2)
ttcttctctct putative PPT
ataatcaatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtactgccttatgccctctctgtggttaattgttgtttggttgttcactactctttgcttcaaatgttgaaaacccaattacagtctcttcttgtaaatacttttagtatacttcatttgtctacataatcaatttgtttcccctgaataacaaattcttctctctagGAACTTCTTGCTTTCTTACTGGATGGACTGCATGAAGATTTGAATCGTGTAAAACAAAAGCCATATATTGAAACAAAGGATTCAAATGGTCGCCCAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG