Sequence
atgc intronic sequence ATGC exonic sequence...tttggtgcattaagaagcatcctgtagttggtatttttttccttccatttatttatgtggcgtacttcacacgcttgtcttaatctgaagcatggtatagGTTGTAGATTCCATGGTTGTAGAGAGGGCTCGGGGTGAGTCACAAAGCATGTCAGGATCGCTTCAGTCTTTATGCTGGGGATCCTCTGCTTTTGGTGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g03660.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G39220.1 (Glycine max), 3'ss of exon 4
----tttggtgcattaagaagcatcctgtagttggtatttttttccttccatttatttatgtggcgtacttcacacgcttgtcttaatctgaagcatggtatagGTTGTAGATTCCATGGTTGTAGAGAGGGCTCGGGGTGAGTCACAAAGCATGTCAGGATCGCTTCAGTCTTTATGCTGGGGATCCTCTGCTTTTGGTGGAA
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cttattttatgttttcaattttatc-tgtctctgatattatggctgtagtgttttatcatcta---tagattcaattgttccgagacactgagctgtgtttcagGTTGTAGATTCAATGGTTGTGGAGAGGGCACGTGGTGAGTCACAAAGCACCTCAGGATCTCTTCAGTCTTTATGTTGGGGTTCTTCGGCCTTTGGTGGAA
upper sequence: Vv05s0020g03660.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G28510.1 (Glycine max), 3'ss of exon 5
tttggtgcattaagaagcatcctgtagttggtatttttttccttccatttatttatgtggcgtacttcaca----cgcttgtcttaat---ctgaagcatggtatagGTTGTAGATTCCATGGTTGTAGAGAGGGCTCGGGGTGAGTCACAAAGCATGTCAGGATCGCTTCAGTCTTTATGCTGGGGATCCTCTGCTTTTGGTGGAA
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------accttattttatgttttcaattttatctgtctctgatattatg-gctgactggctgtagtttatagattcaattgttcagagacactgagctgtgttttagGTTGTAGATTCAATGGTTGTGGAGAGGGCACGTGGTGAGTCCCAAAGCACCTCGGGATCTCTTCAGTCTTTATGTTGGGGTTCTTCGGCCTTTGGTGGAA
upper sequence: Vv05s0020g03660.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G32040.1 (Arabidopsis thaliana), 3'ss of exon 4
tttggtgcattaagaagcatcctgtagttgg--tatttttttccttccatttatttatgtggcgtacttcacacgcttgtcttaatctgaagcatggta-tagGTTGTAGATTCCATGGTTGTAGAGAGGGCTCGGGGTGAGTCACAAAGCATGTCAGGATCGCTTCAGTCTTTATGCTGGGGATCCTCTGCTTTTGGTGGAA
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----gtaagttttcaaatccattctggttaacttagcttggttaagttgcaagatagagttggatatattgaaatattaattaagtggttaacgttttaatagGTAGTAGACTCAATGGTAGTGGAACGGGCTCGTGGTGAGTCACAAAGCGTGTCAGGATCGCTGCAGTCTTTGTGCTGGGGATCCTCAGCTTTTGGTGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catttatttatgtggcgtacttcacacgcttgtcttaatctgaagcatggtatagGTTGTAGATTCCATGGTTGTAGAGAGGGCTCGGGGTGAGTCACAAAGCATGTCAGGATCGCTTCAGTCTTTATGCTGGGGATCCTCTGCTTTTGGTGGAA
tcttaat putative branch site (score: 3)
atttatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttggtgcattaagaagcatcctgtagttggtatttttttccttccatttatttatgtggcgtacttcacacgcttgtcttaatctgaagcatggtatagGTTGTAGATTCCATGGTTGTAGAGAGGGCTCGGGGTGAGTCACAAAGCATGTCAGGATCGCTTCAGTCTTTATGCTGGGGATCCTCTGCTTTTGGTGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - gtgcatt
- - - - - - - - gcatcct
- - - - - - - - - - - - tagttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacacgc