Sequence
atgc intronic sequence ATGC exonic sequence...aaaggcgagtaaaaaaaggcttcatccacctcaatcataattactgaatttgatctagtatagttttcatgttattgagccatgatgtttgatgccatagGTAGAGTTTGATGAAAATGGAAAAGCTTTTGGTGTGACATCAGAAGGAGAAACTGCAAAATGCAAAAAAGTTGTATGTGATCCTTCATATTTGCCTGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0313g00050.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g16900.1 (Oryza sativa), 3'ss of exon 8
aaaggcgagtaaaaaaaggcttcatccacctcaatcataattactgaatttgatctagtatagttttcatgttattgagccatgatgtttgatgccatagGTAGAGTTTGATGAAAATGGAAAAGCTTTTGGTGTGACATCAGAAGGAGAAACTGCAAAATGCAAAAAAGTTGTATGTGATCCTTCATATTTGCCTGACA
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----gtaaccgaagcattgct-cagatgctactttggtactttccaact---atccagatgaatgcttata--att---ctacggtcgttggc-----agGTTGAGTTTGATGAAAATGGGAAAGCATACGGTGTCACTTCCGAGGGGGAGACTGCAAAATGCAAGAAGGTTGTCTGTGACCCTTCATACTTGCCTGACA
upper sequence: Vv00s0313g00050.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G09550.1 (Arabidopsis thaliana), 3'ss of exon 7
aaaggcgagtaaaaaaaggcttcatccacctcaatc-ataattactg-aatttga-tctagtatagttttcatgttattgagccatgatgtttgatgccatagGTAGAGTTTGATGAAAATGGAAAAGCTTTTGGTGTGACATCAGAAGGAGAAACTGCAAAATGCAAAAAAGTTGTATGTGATCCTTCATATTTGCCTGACA
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-gttatgaacaacctataatctcttctttctctgtttataaatgatataacttaactcttttaaagatagaaactcatgaaccttcaatatcatccctaacagGTAGAGTTTGATGGTTCTGGAAAAGCTATTGGTGTCACTTCTGCAGGAGAAACTGCTAAATGCAAGAAAGTTGTATGTGATCCTTCTTACCTGTCTGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatttgatctagtatagttttcatgttattgagccatgatgtttgatgccatagGTAGAGTTTGATGAAAATGGAAAAGCTTTTGGTGTGACATCAGAAGGAGAAACTGCAAAATGCAAAAAAGTTGTATGTGATCCTTCATATTTGCCTGACA
gtttgat putative branch site (score: 5)
tatagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaggcgagtaaaaaaaggcttcatccacctcaatcataattactgaatttgatctagtatagttttcatgttattgagccatgatgtttgatgccatagGTAGAGTTTGATGAAAATGGAAAAGCTTTTGGTGTGACATCAGAAGGAGAAACTGCAAAATGCAAAAAAGTTGTATGTGATCCTTCATATTTGCCTGACA
- - - - - aaaaaaa
- - - - - - - - - - - - -ccacctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgat