Sequence
atgc intronic sequence ATGC exonic sequencegttagttcttaatgggatttctttcatcttattttttttacctcactatcatataagaaggctctgtgctaatatttctcttgttactaaaaaagaaatacatatgtaacaattgggaaattttgttgtaaccttttcaagctgcaggtttttgttccttggataaaactaaacttgtgcatttgactactagGTCAGGAGCAGAATCAGGTACATCAGAGGTTGATGATGATTCTGTGGAGCTGGAAAAGAGCAATGTTCTCTTGATGGGTCCAACTGGCTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G35600.1 (Glycine max), 3'ss of exon 1
gttagttcttaatgggatttctttcatcttattttttttacctcactatcatataagaaggctctgtgctaatatttctcttgttactaaaaaagaaatacatatgtaacaattgggaaattttgttgtaaccttttcaagctgcaggtttttgttccttggataaaactaaacttgtgcatttgactactagGTCAGGAGCAGAATCAGG--TACATCAGAGGTTG----ATGATGATTCTGTGGAGCTGGAAAAGAGCAATGTTCTCTTGATGGGTCCAACTGGCTCAG
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-------------------------------------------------------------------------------------------------------------------------------------------------------------gttttctatgactcaattgcttaatataa-tactaggtcagagGCAGATGAAGGACTCTCTCAAGGATTGGATGATGGGGATGATGTGGAGCTGGAAAAGAGTAATGTTCTCTTGATGGGTCCAACCGGTTCAG
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G28260.1 (Glycine max), 3'ss of exon 3
gttagttcttaatgggatttctttcatcttattttttttacctcactatcatataagaaggctctgtgctaatatttctcttgttactaaaaaagaaatacatatgtaacaattgggaaattttgttgtaaccttttcaagctgcaggtttttgttccttggataaaactaaacttgtgcatttgactactagGTCAGGAGCAGAATCAGGTACATCAGAGGT------TGATGATGATTCTGTGGAGCTGGAAAAGAGCAATGTTCTCTTGATGGGTCCAACTGGCTCAG
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-------------------------------------------------------------------------------------------cacggtaaatatatggggtatttacccaagt--gtcaaaatcatagtttgttctttcacattatctatttgctatgattgaattggtggatttcaatactagGTCAGCCGCAGATTCAGGAGCTTCAGAAGTATTAGATGATGACGATAATGTGGAACTAGAAAAGAGTAATGTTCTCTTGATGGGTCCAACAGGGTCAG
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G33080.1 (Glycine max), 3'ss of exon 3
gttagttcttaatgggatttctttcatcttattttttttacctcactatcatataagaaggctctgtgctaatatttctcttgttactaaaaaagaaatacatatgtaacaattgggaaattttgttgtaaccttttcaagctgcaggtttttgttccttggataaaactaaacttgtgcatttgactactagGTCAGGAGCAGAATCAGGTACATCAGAGGT------TGATGATGATTCTGTGGAGCTGGAAAAGAGCAATGTTCTCTTGATGGGTCCAACTGGCTCAG
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-------------------------------------------------------------------------------------------catggtaaatatatggggaatttacccaagt--gtcaaaatcatagtttggtctttcacattatctatttgctatgattgaatcggtggatttcaatactagGTCAGCCGCAGATTCAGGAGTTTCAGAAGTATTAGATGATGACGATAATGTGGAGCTAGAGAAAAGTAATGTTCTCTTGATGGGTCCAACAGGGTCAG
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G33360.1 (Arabidopsis thaliana), 3'ss of exon 2
gttagttcttaatgggatttctttcatcttattttttttacctcactatcatataagaaggctctgtgctaatatttctcttgttactaaaaaagaaatacatatgtaacaattgggaaattttgttgtaaccttttcaagctgcaggtttttgttccttggataaaactaaacttgtgcat-ttgactactagGTCAGGAGCAGAATCAGGTACATCAGAGGTTGATGATGATTCTGTGGAGCTGGAAAAGAGCAATGTTCTCTTGATGGGTCCAACTGGCTCAG
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----------------------------------------------------------------------gttggttctctcact--catccattgtttattttcctggctttagttacatgattcagacgcattatcaccgttcaatccgttat-----ggtttactctgatattgtggaccttgaatcctagGTCAGCAGCACAACCAATT---------GATGATGACGATAATGTAGAATTAGATAAGAGCAATGTTCTCTTGATGGGGCCTACTGGCTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagctgcaggtttttgttccttggataaaactaaacttgtgcatttgactactagGTCAGGAGCAGAATCAGGTACATCAGAGGTTGATGATGATTCTGTGGAGCTGGAAAAGAGCAATGTTCTCTTGATGGGTCCAACTGGCTCAG
ataaaactaaactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttcttaatgggatttctttcatcttattttttttacctcactatcatataagaaggctctgtgctaatatttctcttgttactaaaaaagaaatacatatgtaacaattgggaaattttgttgtaaccttttcaagctgcaggtttttgttccttggataaaactaaacttgtgcatttgactactagGTCAGGAGCAGAATCAGGTACATCAGAGGTTGATGATGATTCTGTGGAGCTGGAAAAGAGCAATGTTCTCTTGATGGGTCCAACTGGCTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA