Sequence
atgc intronic sequence ATGC exonic sequence...aaaaagagattcaaaactagtcaagcttctgctttgctacataggcatatcaattggatgcactaactatgtttgatttggtcaattgtcttaaatttagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os01g15490.3 (Oryza sativa), 3'ss of exon 10
aaaaagagattcaaaactagtcaagcttctgctttgctacataggcatatcaatt---ggatgc-actaactatgtttgatttggtcaattgtcttaaatttagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG
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--gaactgttgtcatac--actaaatggttgcttcatgaatttgactgaacaaatcacaaatgccatttactgttatcaacatgtttaatttgaattttcatagGCTCCTGATGAAGAGTTTGAAGAATACCTTAGTCAACTGATAGGAGACAATTACACTGGTGATCGAAATGAG
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G381933_T04 (Zea mays), 3'ss of exon 10
aaaaagagattcaaaactagtcaagcttctgctttgctacataggcatatca--attggat--gcactaactatgtttgatttggtcaa-------ttgtcttaaatt----tagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG
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--------ttgcataacta--tgaattgttgttgtaccaaatggttatttcattattaaactgacaaaaatgccattttttagtatcaacttatctttgctttgaattagCGTAGGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAATTACACTGGTGACCGAAATGAG
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G381933_T02 (Zea mays), 3'ss of exon 10
-aaaaagagattcaaaactagtcaagcttctgctttgctacataggcatatcaattggatgcactaactatgtttgatttggtcaattgtcttaaatt----tagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG
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taactatgaattgttgttgtaccaaatggttatttcattat-taaactgacaaa---aatgccattttttagtatcaacttatct-ttgctttgaattagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAATTACACTGGTGACCGAAATGAG
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA03G34140.1 (Glycine max), 3'ss of exon 10
---aaaaagagattcaaaactagtcaagcttctgctttgctacataggcatatcaattggatgcactaactatgtttgatttggtcaattgtcttaaatttagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG
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gcatctcaatttctctctgttatttcagctttt-tttcactttttct-catcttcctggaatctctatatcattattg-tttgttgatttggttttgatgtagGCTCCTGATGAAGAATTTGAAGAATATCTCAGGCATATTATTGGTGATCAGTGTACTGGTGACCGAAATGAG
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA19G36860.1 (Glycine max), 3'ss of exon 11
aaaaagagattcaaaactagtca-agcttctgctttgctacataggcatatcaattggatgcactaactatgtttgatttggtcaattgtcttaaatttagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG
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-acaatcagttcagattgcatctcaatttctccgttttctcagctttctttcactttttctcatcttcctggaatctctatatcattatcatttgatgtagGCTCCAGATGAAGAATTTGAAGAATATCTCAGGCATATTATTGGTGATCAATGTACTGGTGACCGGAATGAG
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G03430.1 (Arabidopsis thaliana), 3'ss of exon 11
-------------------------------------aaaaagagattcaaaactagtcaa-gcttctgctttgctacata-ggcatatcaattgg-atgcactaactatgtttgatttggtcaattgtcttaaatttagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG
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gtacgtatctcttttatattagtgcaaactcatggttaagatatgtgccttaacatctcaatgaatgtgggtgtcaacaagtgaaaaagcaatcaccactcaattgtaatgtgagaagctgata-ctgccatttattcagGCACCTGATGAAGAGTTTGAGGAATACCTTAGGCATCTTATCAGCGACCAGTGCACAGGTGACAGGAATGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catatcaattggatgcactaactatgtttgatttggtcaattgtcttaaatttagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG
ttgtctt CT-rich tract
aattgtcttaaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaagagattcaaaactagtcaagcttctgctttgctacataggcatatcaattggatgcactaactatgtttgatttggtcaattgtcttaaatttagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG
aaaaaga
- - - - - - aaaacta
- - - - - - - - - - - - -cttctgc
- - - - - - - - - - - - - - - - -ttgctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactaac