Sequence
atgc intronic sequence ATGC exonic sequencegtatccatggacctcaagcttaatcaaaactttgtaacaacttcttatcgtaatagcattgctttatttctaattttccttgtctcctatttttttcctgaaaaattagAACTGCTTGTGTGATAGCTGTTGCAAAGGCTCGAGATACATTTGAACCTTTTCTTCATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0055g00490.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os12g07880.1 (Oryza sativa), 3'ss of exon 10
gtatccatggacctcaagcttaatcaaaactttgtaacaacttcttatcgtaatagcattgctttatttctaattttccttgtctcctatttttttcctgaaaaattagAACTGCTTGTGTGATAGCTGTTGCAAAGGCTCGAGATACATTTGAACCTTTTCTTCATCAG
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-------------gtagtctcattccatatatca-ggcatactttgactatatttatatagc---------acatttactcattttcaacttttttt-------gttagGACTGCTTGTGTGTTAGCTGTGGCAAAAGCACGTGACACATTTGAGCCTTATCTTCACCAG
upper sequence: Vv12s0055g00490.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA05G24890.1 (Glycine max), 3'ss of exon 6
gtatccatggacctcaagcttaatcaaaactttgtaacaacttcttatcgtaatagcattgctttatttctaattttccttgtctcctatttttttcctgaaaaattagAACTGCTTGTGTGATAGCTGTTGCAAAGGCTCGAGATACATTTGAACCTTTTCTTCATCAG
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------------------gtaattctgtgtgttttacctattcattcttgta-tactactaattgttaaatattatatattaaaata-atttttattttgagtaaccagGACTGCTTGTGTAATTGCTGTTGCAAAGGCTCGTGACACATTTGAACCTTTTCTTCATCAG
upper sequence: Vv12s0055g00490.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G07990.2 (Glycine max), 3'ss of exon 8
gtatccatggacctcaagcttaatcaaaactttgtaacaacttcttatcgtaatagcattgctttatttctaatt-ttccttgtctc--ctatttttttcctgaaaaattagAACTGCTTGTGTGATAGCTGTTGCAAAGGCTCGAGATACATTTGAACCTTTTCTTCATCAG
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-------gtaattctgtgttttacctattcattcttgtgtgtattttacctattcattcttgtatactactaattgttaaatgttaaaataatttttattttgagtaaccagGACTGCTTGTGTAATTGCTGTTGCGAAGGCTCGTGACACATTTGAACCTTTTCTTCATCAG
upper sequence: Vv12s0055g00490.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G19720.2 (Arabidopsis thaliana), 3'ss of exon 10
-----------------------------------gtatccatggacctca-agcttaatcaaaactttgtaacaacttcttatcgtaatagcattgctttatttctaattttccttgtctcctatttttttcctgaaaaattagAACTGCTTGTGTGATAGCTGTTGCAAAGGCTCGAGATACATTTGAACCTTTTCTTCATCAG
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gtatcataggattgactgacatgcaacacacttctcaatttattgtctttgcatcccagacccctttcagtatctaatctgagctgcaac-gtttgtcatgttttctatggcctcttattctctttctcttatttgctgttgtagAACAGCTTGTGTTATAGCAGTTGCGAAGGCTCGTGAGACGTTTGAACCTTTCCTTCATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcattgctttatttctaattttccttgtctcctatttttttcctgaaaaattagAACTGCTTGTGTGATAGCTGTTGCAAAGGCTCGAGATACATTTGAACCTTTTCTTCATCAG
ttctaat putative branch site (score: 2)
tttctaattttccttg CT-rich tract
tatttttttcctgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatccatggacctcaagcttaatcaaaactttgtaacaacttcttatcgtaatagcattgctttatttctaattttccttgtctcctatttttttcctgaaaaattagAACTGCTTGTGTGATAGCTGTTGCAAAGGCTCGAGATACATTTGAACCTTTTCTTCATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG