Sequence
atgc intronic sequence ATGC exonic sequencegtatggtattaatatatgaccagatgtggcttcttgcatcattttttaataaatgataagtgggcaactatggatgttttgtacagATGATGGAGGTGGAATGGATCCTGAATCTATTCGGAAATGCATGAGCTTGGGTTACTCTTCAAAGAAGTCGAACACAACAATTGGACAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G24450.1 (Glycine max), 3'ss of exon 3
--------------gtatggtattaatatatgaccagatgtggcttcttgcatcattttttaataaatgataagtgggcaactatggatgttttgtacagATGATGGAGGTGGAATGGATCCTGAATCTATTCGGAAATGCATGAGCTTGGGTTACTCTTCAAAGAAGTCGAACACAACAATTGGACAAT
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atatattttagcctaatctttactgttatagtaatttttttggtttgatattcaagttattggcaacaaaggcttattggagcacatgtttcctgtgcagATGATGGTGGTGGAATGAACCCTAATGCAATTCGAAAATGCATGAGCTTGGGTTATTCATCAAAGAAGTCAAAGACAACAATTGGACAGT
upper sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G05800.1 (Glycine max), 3'ss of exon 5
--------------gtatggtattaatatatgaccagatgtggcttcttgcatcattttttaataaatgataagtgggcaactatggatgttttgtacagATGATGGAGGTGGAATGGATCCTGAATCTATTCGGAAATGCATGAGCTTGGGTTACTCTTCAAAGAAGTCGAACACAACAATTGGACAAT
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atatattttagactaatttttactgttatagtaattcttttggtttgatattcaagttattggcaacaaaggcttactggagcacgtgtttcctgtgcagATGATGGTGGTGGAATGAACCCTAATGCAATTCGAAAATGCATGAGCTTGGGTTATTCATCAAAGAAGTCAAAGACAACGATTGGACAGT
upper sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G36290.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatggtattaatatatgaccagatgtggcttct---tgcatcattttttaa------taaatgataagtgggcaactatggatgttttg---tacagATGATGGAGGTGGAATGGATCCTGAATCTATTCGGAAATGCATGAGCTTGGGTTACTCTTCAAAGAAGTCGAACACAACAATTGGACAAT
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gtacactgcctttgaatgtattggtggtgcttttgcgtaaaggagtttttgaatcttgtgcatgacat-tatccttcttttgtttttttcacttgaagATAATGGTGGTGGGATGGATCCTAATGGGATCAGAAAATGCATGAGCTTAGGCTACTCGTCAAAGAAGTCTAATACGACAATTGGACAAT
upper sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G36280.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatggtattaatatatgacca-gatgtggcttcttgcatcattttttaataaatgataagtg----ggcaactatggatg--ttttgtac----agATGATGGAGGTGGAATGGATCCTGAATCTATTCGGAAATGCATGAGCTTGGGTTACTCTTCAAAGAAGTCGAACACAACAATTGGACAAT
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gtacatttcctttgaatgactgtggtgcttttgccta-accaaggcttgggatgttgttattgatatggtttctctcctttctttttgaacttgaagATGATGGTGGTGGGATGGATCCCGCTGGGCTCAGAAAATGCATGAGCTTAGGCTACTCATCAAAGAAGTCTAATACAACGATTGGACAGT
upper sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G36270.1 (Arabidopsis thaliana), 3'ss of exon 4
----gtatggtattaatatatgaccagatgtggcttcttgcatcattttt-----taataaatgataagtgggcaactatggatgttttgtacagATGATGGAGGTGGAATGGATCCTGAATCTATTCGGAAATGCATGAGCTTGGGTTACTCTTCAAAGAAGTCGAACACAACAATTGGACAAT
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gtatatttcctattatagagtgtgtagtgcttttcccttaccgaggctttgtatgttgttaatgacatggtgtcttctttttttccaacttgaagATGATGGCGGTGGAATGGATCCCGATGGGCTCAGAAAATGCATGAGCTTAGGCTACTCATCAAAGAAGTCTAATACGACGATTGGACAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgcatcattttttaataaatgataagtgggcaactatggatgttttgtacagATGATGGAGGTGGAATGGATCCTGAATCTATTCGGAAATGCATGAGCTTGGGTTACTCTTCAAAGAAGTCGAACACAACAATTGGACAAT
ttttaat putative branch site (score: 3)
atcattttttaataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggtattaatatatgaccagatgtggcttcttgcatcattttttaataaatgataagtgggcaactatggatgttttgtacagATGATGGAGGTGGAATGGATCCTGAATCTATTCGGAAATGCATGAGCTTGGGTTACTCTTCAAAGAAGTCGAACACAACAATTGGACAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT