Sequence
atgc intronic sequence ATGC exonic sequence...atgacgagcttctttgtggttatggtatcatcaaattgagaactaaaaaattaaagtggaattttcccaattgtttatttcatctgcaaatgtcaaacagGGTCCAGAAATTCGAACCGGGTTTTTGAAGGATGAAAAGCCCATCCATCTGAAGCAAGGCCAAGAGATCACCATATCCACTGACTATAACATAAAGGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g00130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G56350.1 (Arabidopsis thaliana), 3'ss of exon 1
atgacgagcttctttgtggttatggtat-catcaaattgagaactaaaaaattaaagtggaattttcccaattgtttat--ttcatctgcaaatgtcaaacagGGTCCAGAAATTCGAACCGGGTTTTTGAAGGATGAAAAGCCCATCCATCTGAAGCAAGGCCAAGAGATCACCATATCCACTGACTATAACATAAAGGGTG
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ttcttgaattgtcttatgtatgtgaattgtggcagatcta---tttgtttgtttgttttcgattttgctaatggagtgttgttgtttcttttctgttataaagGGTCCAGAAATCCGAACCGGGTTCTTGAAAGATGGGAAACCAATCCAGCTGAAACAAGGACAAGAGATCACTATTTCGACTGACTATGACTTGAAGGGTG
upper sequence: Vv06s0004g00130.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G26390.1 (Arabidopsis thaliana), 3'ss of exon 1
-atgacgagcttctttgtggttatggtatcatcaaattgagaactaaaaaattaaagtggaattttcccaattgtt--tatttcatctgcaaatgtcaaacagGGTCCAGAAATTCGAACCGGGTTTTTGAAGGATGAAAAGCCCATCCATCTGAAGCAAGGCCAAGAGATCACCATATCCACTGACTATAACATAAAGGGTG
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tattgctaataatctcatgaacgtgatagatttatat---gttttgggggacccttttggtttctgaataattatgggaatgatttttgtatttgtctggcagGGACCAGAGATTCGAACCGGGTTCTTAAAGGATGGGAAACCTATCCAGCTCAAACAAGGCCAAGAAATCACCATTTCAACTGACTATGACTTGAAGGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaattaaagtggaattttcccaattgtttatttcatctgcaaatgtcaaacagGGTCCAGAAATTCGAACCGGGTTTTTGAAGGATGAAAAGCCCATCCATCTGAAGCAAGGCCAAGAGATCACCATATCCACTGACTATAACATAAAGGGTG
aactaaa putative branch site (score: 2)
aattgtttatttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgacgagcttctttgtggttatggtatcatcaaattgagaactaaaaaattaaagtggaattttcccaattgtttatttcatctgcaaatgtcaaacagGGTCCAGAAATTCGAACCGGGTTTTTGAAGGATGAAAAGCCCATCCATCTGAAGCAAGGCCAAGAGATCACCATATCCACTGACTATAACATAAAGGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - -ttgtggt
- - - - - - - - - - - - - - -atcaaat
- - - - - - - - - - - - - - - - - - - - - - aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catctgc