Sequence
atgc intronic sequence ATGC exonic sequencegtaagtattttgctctcatgtatttcttttgcttgtgtttttattgtacctccacgtgtactcatctatttctaattacaatacaggaaattactcacattgagctaattgtcttggttaacctttttttggcagGTATGTAGCCTGGATTTTAGTGGCAGCTATTTATCATCTTCCTAGTTTTCTATCAATGGGAGTGGATATGAGGATGAATCTTTCTTTGTTTTTGACAATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 1
gtaagtattttgctctcatgtatttcttttgcttgtgtttttat-tgtacctccacgtgtactcatctatttctaattacaatacaggaaattactcacattgagctaattgtcttggttaacctttttttggcagGTATGTAGCCTGGATTTTAGTGGCAGCTATTTATCATCTTCCTAGTTTTCTATCAATGGGAGTGGATATGAGGATGAATCTTTCTTTGTTTTTGACAATA
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-----------------gtgagtttcttagacaaatgtattgctatctatgtgtatgtgctattatatatttttatgaaatatttatgggatta--------gaaataattaagc------gcccatttttg-cagGTACATAGCTTGGATTTTAGTGGCAGCTGTGTATCATCTTCCTAGCTTTCAGTCAATGGGAGTGGATATGAGGATGAATCTATCTTTGTTTTTGACAATA
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 1
gtaagtattttgctctcatgtatttcttttgcttgtgtttttattgtacctccacgtgtactcatctatttctaattacaatacaggaaattactcacattgagctaattgtcttggttaacctttttttggcagGTATGTAGCCTGGATTTTAGTGGCAGCTATTTATCATCTTCCTAGTTTTCTATCAATGGGAGTGGATATGAGGATGAATCTTTCTTTGTTTTTGACAATA
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-----------------gtgagtttcttagacaactgtatt-gccatatatgtgtctgtgctaatatatatatttatgaaatatt-----ttatgggattagaaataatta--------agcatccattttgcagGTACATAGCTTGGATTTTAGTGGCAGCTGTGTATCATCTTCCTAGCTTTCAGTCAATGGGAGTGGATATGAGGATGAATCTATCTTTATTTTTGACTATA
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagtattttgctctcatgtatttcttttgcttgtgtttttattgtacctccacgtgtactcatctatttctaattacaatacaggaaattactcacattgagctaattgtcttggttaacctttttttggcagGTATGTAGCCTGGATTTTAGTGGCAGCTATTTATCATCTTCCTAGTTTTCTATCAATGGGAGTGGATATGAGGATGAATCTTTCTTTGTTTTTGACAATA
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---------------------------------------------gtaagcaaccgt-tact--tccatcttc--tgaaaatatctaatattgatttcactctataaaatttcctaattctttgttttggtgtagGTACATTGCCTGGATTTTAGTTGCAGCTTTGTATCATCTTCCTAATTTTCAGTCAATGGGTTTGGATTTGAGGATGAATTTGTCCTTGTTTCTAACAATT
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G23000.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaagtattttgctctcatgtatttcttttgcttgtgtttttattgtacctccacgtgtactcatctatttctaattacaatacaggaaattactcacattgagctaattgtcttggttaacctttttttggcagGTATGTAGCCTGGATTTTAGTGGCAGCTATTTATCATCTTCCTAGTTTTCTATCAATGGGAGTGGATATGAGGATGAATCTTTCTTTGTTTTTGACAATA
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---------------------------------------------------gtaagtgaatatcttttattctgtcttccatggggtctat-atcaaaaaagatttaaca--cttaaaaggttttgttgtg-tagGTACATTGCTTGGATTTTAGTTGCAGCTTTGTACCATCTCCCAAGTTTTCAGTCAATGGGTTTGGATTTGAGGATGAATTTGTCCTTGTTTCTAACAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacaggaaattactcacattgagctaattgtcttggttaacctttttttggcagGTATGTAGCCTGGATTTTAGTGGCAGCTATTTATCATCTTCCTAGTTTTCTATCAATGGGAGTGGATATGAGGATGAATCTTTCTTTGTTTTTGACAATA
ccttttttt CT-rich tract
ttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtattttgctctcatgtatttcttttgcttgtgtttttattgtacctccacgtgtactcatctatttctaattacaatacaggaaattactcacattgagctaattgtcttggttaacctttttttggcagGTATGTAGCCTGGATTTTAGTGGCAGCTATTTATCATCTTCCTAGTTTTCTATCAATGGGAGTGGATATGAGGATGAATCTTTCTTTGTTTTTGACAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG