Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgcctaattgcactactttaaaatgtccacttacgacataagaatttgtatgtctgtttcagtagttaaaatgcttttatcattccttttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os04g44430.1 (Oryza sativa), 3'ss of exon 3
gtaagttgccta--attgc-----actactttaaaatgtccacttacgacataag--aatttgtatgtctgtttcagtagttaaaatgcttttatcattcct-tttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
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gtaagtaccttgtcattgtgaataatcaattcatgtttcagatctgttacttaaaataaatcttactctgataatgacacgaacaattctccaattattgttacttagGTTAGTTGGTGTTGGTGAAGCATCATTTATAAGTCTTGCAGCTCCATTCATTGATGATAATGCTCCAGCAGCACAG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G164743_T01 (Zea mays), 3'ss of exon 4
gtaag-----ttgcctaatt--gcactactttaaaatgtccacttacgacataagaatttgtatgtctgtttcagtagttaaaatgcttttatcattccttttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
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gtaagtatcattgctatatcaagtacctgctaagaaagatttattgctactcttctaatcacatggccattt----attcaaa---cttttgatttgatactcagGTTTGTGGGCGTTGGCGAAGCTTCATTTATAAGTCTTGCAGCTCCATTTATTGATGACAATGCACCAGTAGCTCAG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G062024_T01 (Zea mays), 3'ss of exon 4
gtaagttgccta--attgca--ctactttaaaatgtccacttacgacataagaatttgtatgtctgtttcagtagttaaaatgcttttatcattcct----tttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
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gtaagtgctttatcattgctaccaactatcaagtatctg-ttaagaaagattcattggcactcttctaatcaca-ttgtcatttattcaaaatttttgaaactcagGTTTGTTGGCGTTGGCGAAGCTTCATTTATAAGTCTCGCAGCTCCATTCATTGATGACAATGCACCGGTAGCTCAG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G30370.1 (Glycine max), 3'ss of exon 4
-------------gtaagttgcctaattgcactactttaa-----aatgtccacttacgacataa-gaatttgtatgtctgtttcagtagttaaaatgcttttatcattccttttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
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gtaagtgtcttcagttatttattgaactctatggttttggcattgaatacaaacatagtacatgatgtaagaacctgtcatatttttttttccttatactgttgtatttttatacagGCTAGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCAGCACCTTTCATTGATGACAATGCCCCAGTTTCACAG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G06880.1 (Glycine max), 3'ss of exon 4
-------------gtaagttgcctaattgcactactttaaaat---gtccacttacgacataagaatttgtatgtctgtttcagtagttaaaatgcttttatcattccttttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
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gtaagtgtcttcagttatttattgaactctatggtttttgcattgaatacattcatagtacatgatgtaagaatcttcatatttttttccttatactgttgtatttttctacagGCTAGTTGGTGTTGGTGAGGCTTCATTTATGAGTCTTGCAGCACCTTTCATTGATGACAATGCCCCAGTTTCACAG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G32670.1 (Glycine max), 3'ss of exon 4
gtaagttgcctaattgcactactttaaaatgtccacttacg-------------acataagaat-ttgtatgtctgtttcagtagt--taaaatgcttttatcattccttttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
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gtaagtggtctaattctttattttcaagttatgcaattttggttgtgcagttaaacagaagcacacaatataataattttcttattcttcatatcctttcgatattctctatagGCTAGTTGGTGTTGGCGAGGCTTCATTTATAAGTCTTGCAGCACCTTTTATTGATGACAATGCCCCAGTTACTCAG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G06660.1 (Glycine max), 3'ss of exon 4
-----------gtaagttgcctaattgcactactttaaaatgtccactta--cgacataagaatttgtatgtctgtttcagtagttaaaatgcttttatcattccttttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
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gtaagtggtctatttatttttcaagttaagcaattttggttgtgcagttaaacagcagtacaaaatataataattttcttatttttcatatcctttcaacattctctataggctagtcggtgttggtgagGCTTCAT----AAGTCTTGCAGCACCTTTTATTGATGACAATGCCCCAGTTACCCAG
upper sequence: Vv00s0282g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G64500.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagttgcctaattgcactactttaaaatgtccacttacgacataagaatttgtatgtctgtttcagtagttaaaatgcttttatcattccttttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
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gtaagt-gtttagatcttccattatttcttttcatattttattttcaaaatctatacatct-------tcgttt---tacatttctcaccttattcagGTTTGTTGGTGTTGGTGAGGCATCATTTGTAAGTCTTGCTGCCCCATTCATCGACGATAATGCCCCACATGATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataagaatttgtatgtctgtttcagtagttaaaatgcttttatcattccttttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
cttttatcattccttt CT-rich tract
ttaaaatgcttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttgcctaattgcactactttaaaatgtccacttacgacataagaatttgtatgtctgtttcagtagttaaaatgcttttatcattccttttagGTTTGTTGGTGTTGGTGAGGCTTCATTTATAAGTCTTGCTGCTCCATTCATTGATGACAATGCCCCAGTTGCTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT