Sequence
atgc intronic sequence ATGC exonic sequencegtatggggtcacaactttctttgatggtattgtgggttttatgctgtcagtagagttataacaaatttttgtttaaattgaaacagATCCTAGAGTATCATCCCCAGATGCTGCAGGAGTATCTTCGTGGTGGAGATCAAACTAGCTTCATGTACCCGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g45620.1 (Oryza sativa), 3'ss of exon 6
gtatggggtcacaactttctttgatggtattgtgggttttatgctgtcagtagagttataacaaatttttgtttaaattgaaacagATCCTAGAGTATCATCCCCAGATGCTGCAGGAGTATCTTCGTGGTGGAGATCAAACTAGCTTCATGTACCCGAG
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--gtactgctaatcttttctaccatgaggattttggtaatagtcttttcttatg--catggtgtctctctctctctctatctttagATATTAGAGTACCATCCTCAGATGATGCAGAAATATCTTCGTGGTGGGGATCAGTCAAACTTTTTGTACCCCAG
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 7
gtatggggtcaca----actttctttgatggtattgtgggtt-ttatgctgtcagtagagttataacaaatttttgtttaaattga---aacagATCCTAGAGTATCATCCCCAGATGCTGCAGGAGTATCTTCGTGGTGGAGATCAAACTAGCTTCATGTACCCGAG
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--gtgtgatcatagtacatttatgttgttcctgcttcaatttattgtcttctttgtcctgtggtaagaattatgtaaatatttcaagtgaacagATTTTGGAGTATCATCCCCAGATGCTCCAGGAGTATCTTCGTGGTGGAGATCAAACTAGCTTCATGTATCCAAG
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 7
gtatggggtcacaactttctttgatggtattgtgggttttatgctgtcagtagagttataacaaatttt-tgtttaaattgaaacagATCCTAGAGTATCATCCCCAGATGCTGCAGGAGTATCTTCGTGGTGGAGATCAAACTAGCTTCATGTACCCGAG
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gtatgattatagtacatttgtcattccttct-tcaatttattgtcattcctgtggtaagaattatttaaatatttcaatcgaa-cagATTTTGGAGTATCATCCCCAAATGCTCCAGGAATATCTTCGTGGTGGAGATCAAACTAGCTTCATGTATCCAAG
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 7
-------------gtatggggtcacaactttctttgatggtattgtgggttttatgctgtcagtagagttataacaaatt-tttgtttaaattgaaacagATCCTAGAGTATCATCCCCAGATGCTGCAGGAGTATCTTCGTGGTGGAGATCAAACTAGCTTCATGTACCCGAG
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gtatggccatacatttcaatgacttgattcaatttaataatttattgtcttctcctctgtgccttg-gtaataatgagttatacatttgtact-aaacagATTTTAGAGTATCATCCTCAGATGCTCGAAGAATATCTTCGTGGTGGAGAACAAACAAGCTTCATGTATCCAAG
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G11470.1 (Glycine max), 3'ss of exon 7
-------------gtatggggtcacaactttctttgatggtattgtgggttttatgctgtcagtagagttataacaaatt-tttgtttaaattgaaacagATCCTAGAGTATCATCCCCAGATGCTGCAGGAGTATCTTCGTGGTGGAGATCAAACTAGCTTCATGTACCCGAG
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gtatggccatacatttcaatgacttgattcaatttaataatttattgtcttctcctctgtgcctgg-gtaataatgagttatacatttgtact-aaacagATTTTAGAGTATCATCCTCGGATGCTTGAAGAATATCTTCGTTGTGGAGAACAAACAAGCTTCATGTATCCAAG
upper sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G18040.2 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------------------gtatggggtcac--aactttctttgatggtattgtgggttttatgc------------tgtcagtagagttataacaaattttt-----gtttaaattgaaacagATCCTAGAGTATCATCCCCAGATGCTGCAGGAGTATCTTCGTGGTGGAGATCAAACTAGCTTCATGTACCCGAG
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gtacactaatctcttactgtttttgcttcactaaacttgtttggattgattaagctctgaacaatggcaaaatgtatcttcttcctttttcgcacgtatccatcgggtaatcgtaatccttacaaaagttgaatgtgatgcagATATTAGAGTATCATCCTCAGATGCTGCAAGAATATCTTCGAGGTGGAGAACAGACTAGCTTCATGTACCCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgggttttatgctgtcagtagagttataacaaatttttgtttaaattgaaacagATCCTAGAGTATCATCCCCAGATGCTGCAGGAGTATCTTCGTGGTGGAGATCAAACTAGCTTCATGTACCCGAG
ttataac putative branch site (score: 2)
agttataacaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggggtcacaactttctttgatggtattgtgggttttatgctgtcagtagagttataacaaatttttgtttaaattgaaacagATCCTAGAGTATCATCCCCAGATGCTGCAGGAGTATCTTCGTGGTGGAGATCAAACTAGCTTCATGTACCCGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA