Sequence
atgc intronic sequence ATGC exonic sequencegtatgaaatctcaaagggtgattgtgttgatccctgttaattccattcaataacatacacacaaattgagttcttattcatttcaaatgcctgcatttagGTACTGTCCTGTTGGGAGATCCTTCTTTTCTCCTGATATTAGAGCACCTCAACGTCTTGGAGAAGGTTTGGAGTCATGGTGTGGATTCTACCAGAGTATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 4
---gtatgaaatctcaaagggtgattgtgttgatccctgttaattcca--ttcaataacatacacacaaattgagttcttattcatttcaa-atgcctgcattt-----agGTACTGTCCTGTTGGGAGATCCTTCTTTTCTCCTGATATTAGAGCACCTCAACGTCTTGGAGAAGGTTTGGAGTCATGGTGTGGATTCTACCAGAGTATA
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gtagtattggtccaagggatttaagcttttaaaattcaagaaatgataagtttaatgaaa-gtgtgaagcttgagttcttgtttatcttactaaggctgcattttctaaagGTATTGCCCCATTGGGAGGTCCTTCTTTTCACCTGATATTAGAACACCGCAACGGCTTGGAGAGGGATTAGAGTCATGGTGTGGATTTTACCAGAGTATA
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 4
gtatgaaatctcaaaggg---tgattgtgttgatccctgttaattcca--ttcaataacatacacacaaattgagttcttattcatttcaa-atgcctgcattt-------agGTACTGTCCTGTTGGGAGATCCTTCTTTTCTCCTGATATTAGAGCACCTCAACGTCTTGGAGAAGGTTTGGAGTCATGGTGTGGATTCTACCAGAGTATA
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gtagtattggtcaaagggatttaagattttaaaattcaagtaatgacaagtttaatgaaa-gtgtgaagcttaagttcttgtttatcttactaaggctgcattttttttaaagGTATTGCCCTATTGGGAGGTCCTTCTTTTCACCTGATATTAGAACACCGCAACGGCTTGGAGAGGGATTAGAATCATGGTGTGGATTTTACCAGAGTATA
upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 3
gtatgaaatctcaaagggtgattgtgttgatccctgttaattccattcaataacatacacacaaattgagttcttattcatttcaaatgcctgcattt----agGTACTGTCCTGTTGGGAGATCCTTCTTTTCTCCTGATATTAGAGCACCTCAACGTCTTGGAGAAGGTTTGGAGTCATGGTGTGGATTCTACCAGAGTATA
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-----------------------gtagttttgcaaaataattgagagaaaatgtgaa-acttgaagttctttttcccccctcacaaaagcttcattttataaagGTTTTGCCCAATTGGGAGGTCCTTCTTTTCACCTGATATTAGAACACCACAACGGCTTGGAGAGGGTTTGGAATCGTGGTGTGGATTTTACCAAAGCATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaataacatacacacaaattgagttcttattcatttcaaatgcctgcatttagGTACTGTCCTGTTGGGAGATCCTTCTTTTCTCCTGATATTAGAGCACCTCAACGTCTTGGAGAAGGTTTGGAGTCATGGTGTGGATTCTACCAGAGTATA
caataac putative branch site (score: 2)
ttattcatttcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaaatctcaaagggtgattgtgttgatccctgttaattccattcaataacatacacacaaattgagttcttattcatttcaaatgcctgcatttagGTACTGTCCTGTTGGGAGATCCTTCTTTTCTCCTGATATTAGAGCACCTCAACGTCTTGGAGAAGGTTTGGAGTCATGGTGTGGATTCTACCAGAGTATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG