Sequence
atgc intronic sequence ATGC exonic sequencegttcgtgttttctgtaattgatttagcaacttctaccacacaattagctcaatgaatatttgttcaatgcagCCCAACCTTAGTGCAGCATGGTTGTTTCAAAGGGCAATGTCAGCAAAGCAACAGTATGATGTTTCTCCTGATTTCATCAGTGAGCTTCTTTATGTCAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g01150.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os08g32630.5 (Oryza sativa), 3'ss of exon 12
gttcgtgttttctgtaattgatttagcaacttctaccacacaatt---agctcaa--tgaatatttgttcaa--tgcagCCCAACCTTAGTGCAGCATGGTTGTTTCAAAGGGCAATGTCAGCAAAGCAACAGTATGATGTTTCTCCTGATTTCATCAGTGAGCTTCTTTATGTCAATT
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gttagggtact-tataatttatt--atagcccttcatgtgtaatttgaagcagaaacttattttgttttcattttgcagCCAAATTTAAGTGCATCATGGTTGTTCCAAAGAGCAATGTCAGCAAGGCCGCAGATCGATGTTTCCCCAACTTTTATCAATGAGCTTCTCTTTGCTAATT
upper sequence: Vv12s0059g01150.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA14G05100.1 (Glycine max), 3'ss of exon 14
-----gttcgtgttttctgta-attgatttagcaact-tctaccacacaattagctcaatgaatatt-tgttcaatgcagCCCAACCTTAGTGCAGCATGGTTGTTTCAAAGGGCAATGTCAGCAAAGCAACAGTATGATGTTTCTCCTGATTTCATCAGTGAGCTTCTTTATGTCAATT
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gtactttccaacttctctaaagactgtttcagcaactgtagatgaaactaaatacctggccaatattgtgtataatgcagCCCAACTTGAGTGCTTCATGGTTGTTCCAAAGAGCAATGTCAGCAAAGAAACAGTCCAATGTTCCCGCAGATTTTATTAATGAACTTCTATATACCAATT
upper sequence: Vv12s0059g01150.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT2G32640.2 (Arabidopsis thaliana), 3'ss of exon 13
---gttcgtgttttctgtaattgatttagcaacttctaccacacaattagct-caatgaat--atttg----ttcaatg-cagCCCAACCTTAGTGCAGCATGGTTGTTTCAAAGGGCAATGTCAGCAAAGCAACAGTATGATGTTTCTCCTGATTTCATCAGTGAGCTTCTTTATGTCAATT
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gtaatatagctttgtggttctcagctaaatatctttctccctgctattaacttcactgaatccatttggcttttgaacgacagCCAAACTTGAGCGCATCATGGCTGTTTCAAAGAGCAATGTCTGCAAAGCAACAGCTCGATGTTTCCCGTGGCTTCACCAATGAGCTTCTCCATGTAAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatttagcaacttctaccacacaattagctcaatgaatatttgttcaatgcagCCCAACCTTAGTGCAGCATGGTTGTTTCAAAGGGCAATGTCAGCAAAGCAACAGTATGATGTTTCTCCTGATTTCATCAGTGAGCTTCTTTATGTCAATT
aattgat putative branch site (score: 4)
tttgttc putative PPT
aatgaatatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcgtgttttctgtaattgatttagcaacttctaccacacaattagctcaatgaatatttgttcaatgcagCCCAACCTTAGTGCAGCATGGTTGTTTCAAAGGGCAATGTCAGCAAAGCAACAGTATGATGTTTCTCCTGATTTCATCAGTGAGCTTCTTTATGTCAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT