Sequence
atgc intronic sequence ATGC exonic sequence...ctggtctattgttgggttcttaattcaacaaatctctatggctcttatacttctaatgacagtaatgagtaatattgatgttttcaacattgacatgcagAGCACAATGATCACCATTCCCATGATCACACTCATGACCCAGGTGTTTCTTCAGTCAGCATAGTTTGTGAAGGGAGCTTGGACCTTGAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g55630.1 (Oryza sativa), 3'ss of exon 7
ctggtctattgttgggttcttaattcaacaaatctctatggctctta-tacttctaatgacagtaatgagtaatattgatgttttcaacattgacatgcagAGCACAATGATCACCATTCCCATGATCACACTCATGACCCAGGTGTTTCTTCAGTCAGCATAGTTTGTGAAGGGAGCTTGGACCTTGAGAAG
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------tatcactcgaaggtt--ttcaaactctttctaccattttaaatatgctaggtgtccatggtacgaagaacaggtaaactcattgtttttcttttccttata--gACCATCATGCACACGATCACACCCATGATCCTGGTGTTTCTTCTGTAAGCATTGTTTGTGAAGGGGAGATGGATCTTGAAAAG
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G180418_T01 (Zea mays), 3'ss of exon 12
ctggtctattgttgggttcttaattcaacaaatctctatggctc--ttatacttctaatgacagtaatgagtaatattgatgttttcaacattgacatgcagAGCACAATGATCACCATTCCCATGATCACACTCATGACCCAGGTGTTTCTTCAGTCAGCATAGTTTGTGAAGGGAGCTTGGACCTTGAGAAG
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cttgtctttaattttgtatatg--taaattctctcttatcacttatttataaatcccaagtatgaagtaagtaaactctgtgctgccctctttttcttgtagA---------TCATCATGCACATGACCACACTCATGATCCTGGTGTTTCTTCTGTGAGCATTGTTTGCGAAGGGGAGATGGATCTTGAAAAG
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G38450.1 (Glycine max), 3'ss of exon 7
---------------------------------ctggt-ctattgttgggttcttaattcaacaaatctctatggctcttatacttctaatgaca----gtaatgagtaatattgatgttttcaacattgacatgcagAGCACAATGATCACCATTCCCATGATCACACTCATGACCCAGGTGTTTCTTCAGTCAGCATAGTTTGTGAAGGGAGCTTGGACCTTGAGAAG
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gtacctattattttgccttgagtcatagctttttaaatgccattttgattttgtttgtagcactagtcacaatgcactggttgcttctcaattcattctgtcgttggcaataaaaatcattttgt--tttgtgtacagAACACCATGATCACCACTCTCATGATCATAGTCACGATCCTGGTGTTTCATCTGTCAGCATAGTTTGTGAAGGAAGCTTAGACCTTGAGAAG
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G43740.1 (Glycine max), 3'ss of exon 7
-------------------------------ctggtctattgttgggttcttaattcaa---caaatctctatggctcttatacttctaatgacagta-atgagtaatattgatgttttcaacattgacatgcagAGCACAATGATCACCATTCCCATGATCACACTCATGACCCAGGTGTTTCTTCAGTCAGCATAGTTTGTGAAGGGAGCTTGGACCTTGAGAAG
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gtacctattattttgcctcgagtcagagctgtttgaatgccattttgttcttgtttgtagcacgagtcacaatgcactggttgcttctcaattcattctgttgttgggaataaaaattattgttttg-tgtacagAACACCATGATCATCACTCTCATGATCATAGTCACGATCCTGGTGTTTCATCTGTCAGCATAGTTTGTGAAGGAAGCTTAGACCTTGAGAAG
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G80480.1 (Arabidopsis thaliana), 3'ss of exon 7
-ctggtctattgttgggttcttaattcaacaaatctctatggctcttatacttctaatgacagtaatgagtaatattgatgtttt------caacat----------tgacatgcagAGCACA----ATGATCACCATTCCCATGATCACACTCATGACCCAGGTGTTTCTTCAGTCAGCATAGTTTGTGAAGGGAGCTTGGACCTTGAGAAG
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gtaagtttattag-gaaaccttgatttagttatattgattgcatgctccagctttacgaacatggattgttggttctggtctctctcatcacaacctaatcagtctctgattcttaaacctcagATCATCATCATCATTCTCATGATCACACCCATGATCCCGGTGTTTCTTCAGTCAGTATAGTTTGCGAAGGAAGCTTAGACCTTGAGAAG
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G15730.1 (Arabidopsis thaliana), 3'ss of exon 7
ctggtctattgttgggttcttaattcaacaaatctctatggctcttatacttctaatgacagtaatgagta-atattgatgttttcaacattgaca-tgcagAGCACAATGATCACCATTCCCATGATCACACTCATGACCCAGGTGTTTCTTCAGTCAGCATAGTTTGTGAAGGGAGCTTGGACCTTGAGAAG
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-----------gtatgttatagtgttaccaaata---atggccttattactt--aataacgatcgcctacatgcattgattagtttgcttctgaaactgcagAGCA------TCACCATTCTCATGATCACACCCATGACCCTGGTGTTGGTTCAGTCAGTATAGTTTGCGAAGGAGACTTAGACCTCGAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatacttctaatgacagtaatgagtaatattgatgttttcaacattgacatgcagAGCACAATGATCACCATTCCCATGATCACACTCATGACCCAGGTGTTTCTTCAGTCAGCATAGTTTGTGAAGGGAGCTTGGACCTTGAGAAG
taatattgatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctggtctattgttgggttcttaattcaacaaatctctatggctcttatacttctaatgacagtaatgagtaatattgatgttttcaacattgacatgcagAGCACAATGATCACCATTCCCATGATCACACTCATGACCCAGGTGTTTCTTCAGTCAGCATAGTTTGTGAAGGGAGCTTGGACCTTGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - -tgttggg
- - - - - - - - - - - - - aacaaat
- - - - - - - - - - - - - - - - -ctctatg