Sequence
atgc intronic sequence ATGC exonic sequencegtaatcttcttgttttccttggctttgttgctttgttttcttcattttctattgactgtttttgggctgctattttgcagTACAATGAAATTCTTGGCAAAGGAGCTTCCAAGACAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G30210.1 (Glycine max), 3'ss of exon 1
-----gtaatct-tcttgttttccttggctttgttgctttg-ttttcttcattttct---attgactgtttttgggctgc-tattttgcagTACAATGAAATTCTTGGCAAAGGAGCTTCCAAGACAGT
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gtatgctactctctctttttctcttcatctctatccttttggttctcctttttccctcagtttcatgattttttttccatgtttcttgcagTACAATGAAATCCTTGGCAAAGGAGCTTCAAAGACAGT
upper sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G37180.1 (Glycine max), 3'ss of exon 1
------------gtaatcttcttgttttccttggctttgttgctttgttttcttcattttc-tattga--ctgtttttgggctgctattttgcagTACAATGAAATTCTTGGCAAAGGAGCTTCCAAGACAGT
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gtatactattctctctttctctcttcatctctccttcgggttcttcttttccctcagtttcatcatgatgttgttttttccatgtt-tcttgcagTACAATGAAATCCTTGGCAAAGGAGCTTCAAAGACAGT
upper sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaat-cttcttgttttccttggctt--tgttgctttgttttcttcattttctattgactgtttttgggctgctattttgcagTACAATGAAATTCTTGGCAAAGGAGCTTCCAAGACAGT
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gtaatgtttcctcctatcaatcaatcaatctcaattattttgtttgatcttttgttgacttcattgttcttgttgtt--gcagTACAATGAAGTTCTTGGTAAAGGAGCTTCAAAGACTGT
upper sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G04910.2 (Arabidopsis thaliana), 3'ss of exon 1
gtaat-cttcttgttttccttggctt--tgttgctttgttttcttcattttctattgactgtttttgggctgctattttgcagTACAATGAAATTCTTGGCAAAGGAGCTTCCAAGACAGT
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gtaatgtttcctcctatcaatcaatcaatctcaattattttgtttgatcttttgttgacttcattgttcttgttgtt--gcagTACAATGAAGTTCTTGGTAAAGGAGCTTCAAAGACT-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgctttgttttcttcattttctattgactgtttttgggctgctattttgcagTACAATGAAATTCTTGGCAAAGGAGCTTCCAAGACAGT
tattgac putative branch site (score: 2)
ctatttt putative PPT
attttctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcttcttgttttccttggctttgttgctttgttttcttcattttctattgactgtttttgggctgctattttgcagTACAATGAAATTCTTGGCAAAGGAGCTTCCAAGACAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT