Sequence
atgc intronic sequence ATGC exonic sequencegtagtttctttacaaatcatgggatcttctatgttcttaaatatggatcatatttgttagtcaaaaggtttaagtaacatattatgggtttccccctcttctttttggttttcagCTTCTGTGCCATTTTTTGGCTTAAAAAGAAAGGATTGATGCCAGGTTTGACTTTCTCAAATGAGCTTATTTCTAGATATGAGGGCCTTCACTGCGATTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g08010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G38570.1 (Glycine max), 3'ss of exon 5
gtagtttctttacaaatcatgggatcttctatgttcttaaatatggatcatatttgttagtcaaaaggtttaagtaacatattatgggtttccccctcttctttttggttttcagCTTCTGTGCCATTTTTTGGCTTAAAAAGAAAGGATTGATGCCAGGTTTGACTTTCTCAAATGAGCTTATTTCTAGATATGAGGGCCTTCACTGCGATTTT
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gtagttgtctcaagaa--agaacaacttataggcctttccttgt---ttctttatgtgagttatgatgtcctact------ttctgcgtaacttcaattgggatttg-ctttcagCTTCTGTGCCATATTCTGGCTTAAAAAGAGAGGATTGATGCCAGGTTTGACATTCTCAAATGAGCTAATCTCTAGAGATGAGGGCCTTCATTGTGATTTT
upper sequence: Vv06s0004g08010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G23580.1 (Arabidopsis thaliana), 3'ss of exon 5
gtagtttctttacaaatcatgggatcttctatgttcttaaatatggatcatatttgttagtcaaaaggtttaagtaacatattatgggtttccccctcttctttttggttttcagCTTCTGTGCCATTTTTTGGCTTAAAAAGAAAGGATTGATGCCAGGTTTGACTTTCTCAAATGAGCTTATTTCTAGATATGAGGGCCTTCACTGCGATTTT
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-------------------------gtatgacgtctttgaa-----atcataggcattgagaacttatcctatataagctctggtgtataagaatttcatgtggtttggt--cagCTTCTGTGCCATCTTCTGGCTAAAGAAGAGGGGTCTTATGCCGGGTTTGACCTTCTCAAACGAGCTTATATCGAGAGACGAGGGGCTCCACTGTGACTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaaaggtttaagtaacatattatgggtttccccctcttctttttggttttcagCTTCTGTGCCATTTTTTGGCTTAAAAAGAAAGGATTGATGCCAGGTTTGACTTTCTCAAATGAGCTTATTTCTAGATATGAGGGCCTTCACTGCGATTTT
aagtaac putative branch site (score: 2)
tttccccctcttcttt putative PPT
tttaagtaacatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtttctttacaaatcatgggatcttctatgttcttaaatatggatcatatttgttagtcaaaaggtttaagtaacatattatgggtttccccctcttctttttggttttcagCTTCTGTGCCATTTTTTGGCTTAAAAAGAAAGGATTGATGCCAGGTTTGACTTTCTCAAATGAGCTTATTTCTAGATATGAGGGCCTTCACTGCGATTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT