Sequence
atgc intronic sequence ATGC exonic sequence...ttttagatttggaatatgccttcttatttaaattcataggcctcattacaagccttcattgaattaacctcaactaagctattttgatgcaatcttgaagTGGATACCTAGCACCAGAGTATGCAATGCGAGGGCATCTGACAGAAAAAGCTGATGTCTTTGGATTCGGTGTTGTTGCTCTAGAGATCCTCAGTGGGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0092g00470.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os08g10300.1 (Oryza sativa), 3'ss of exon 23
ttttagatttggaatatgccttcttatttaaattcataggcctcattacaagccttcattgaattaacctcaactaagctattttgatgcaatctt--gaagTGGATACCTAGCACCAGAGTATGCAATGCGAGGGCATCTGACAGAAAAAGCTGATGTCTTTGGATTCGGTGTTGTTGCTCTAGAGATCCTCAGTGGGAGG
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-----------------gtatgcacatttcaccctttc--ttttcttatgagtttacctttga--agtctaagctaattttatctcgtctgaccttttgaagCGGCTATCTGGCACCCGAGTATGCAATGAGAGGCCATCTGACTGAAAAGGCTGATGTTTTCGCATTTGGAGTTGTTGCTCTAGAAACAGTTGCTGGCCGA
upper sequence: Vv10s0092g00470.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os05g17050.1 (Oryza sativa), 3'ss of exon 27
ttttagatttggaatatgccttcttatttaaattcataggcctcattacaagccttcattgaattaacctcaactaagctattttgatgcaatcttgaagTGGATACCTAGCACCAGAGTATGCAATGCGAGGGCATCTGACAGAAAAAGCTGATGTCTTTGGATTCGGTGTTGTTGCTCTAGAGATCCTCAGTGGGAGG
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-------gtaagaacaaatcaac--atttgtcttcataca----actataacttctaaatgaatgctactt---ttaactcgtttgatct--ttgtgaagTGGTTATCTAGCTCCTGAGTATGCAATGAGAGGTCGTTTGACAGAAAAGGCTGATGTTTTTGCATTTGGAGTG---------------------------
upper sequence: Vv10s0092g00470.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os04g22470.1 (Oryza sativa), 3'ss of exon 19
ttttagatttggaatatgccttcttatttaaattcataggcctcattacaagccttcattgaattaacctcaactaagctattttgatgcaatcttgaagTGGATACCTAGCACCAGAGTATGCAATGCGAGGGCATCTGACAGAAAAAGCTGATGTCTTTGGATTCGGTGTTGTTGCTCTAGAGATCCTCAGTGGGAGG
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-------gtaagaacat--tttaccactgatcttcttatg----attgtaacatcaatatgaatc--ctactattaacttgtcttat----atttttaagGGGCTATCTAGCTCCAGAGTATGCAATGAGAGGCCATTTGTCAGAAAAGGCTGATGTTTTTGCATTTGGAGTGGTTATGCTGGAGACTGTCGCTGGGCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacaagccttcattgaattaacctcaactaagctattttgatgcaatcttgaagTGGATACCTAGCACCAGAGTATGCAATGCGAGGGCATCTGACAGAAAAAGCTGATGTCTTTGGATTCGGTGTTGTTGCTCTAGAGATCCTCAGTGGGAGG
attgaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttagatttggaatatgccttcttatttaaattcataggcctcattacaagccttcattgaattaacctcaactaagctattttgatgcaatcttgaagTGGATACCTAGCACCAGAGTATGCAATGCGAGGGCATCTGACAGAAAAAGCTGATGTCTTTGGATTCGGTGTTGTTGCTCTAGAGATCCTCAGTGGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - tgccttc
- - - - - - - - - - - - - - - - - - - - cctcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgatgc