Sequence
atgc intronic sequence ATGC exonic sequence...tgggtgtcaaatccacattttttggaaccaattcgatgtcttggtgggtctaccccagccgacaggttactaaactttctgtttctcatttgctttgcagGATAACCCATTAGTTATCGAGTGCTTTGATTTCAATAGTAGTGGGAATCATGTACTGATTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G40220.1 (Glycine max), 3'ss of exon 7
----------------tgggtgtcaaatccacattttttggaaccaattcgatgtcttggtgggtcta-------ccccagccgacagg----ttactaaactttctgtt-tctcatttgctttgcagGATAACCCATTAGTTATCGAGTGCTTTGATTTCAATAGTAGTGGGAATCATGTACTGATTGG
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gtaagcctgtcatctttgggcttatcatttgatgttaccatcatggattattaattataataattctaattactttctcaagtaacaagatatttatcaagcttttaaaagttttaacttctgtgcagGATAATCCATTATTGATCGAGTGTTTTGATTTCAATAGCAGCGGCAATCATGTACTTATTGG
upper sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G40210.1 (Glycine max), 3'ss of exon 7
tgggtgtcaaatccacattttttggaaccaattcgatgtcttggtgggtctaccccagccgacaggttactaaactttctgt-ttctcatttgctttgcagGATAACCCATTAGTTATCGAGTGCTTTGATTTCAATAGTAGTGGGAATCATGTACTGATTGG
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------gtaagcctaccatctttgggcttaacat------ttaatg---ctaca--agatagtat-ttatctagctttgaatatttttaacttctctgcagGATAATCCATTAGTGATCGAGTGTTTTGATTTCAATAGCAGCGGCGATCATGTACTTATTGG
upper sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G42790.1 (Glycine max), 3'ss of exon 7
tgggtgtcaaatccacattttttggaaccaattcgatgtcttggtgggtctaccccagccgacaggttactaaactttctgtttctcat-ttgctttgcagGATAACCCATTAGTTATCGAGTGCTTTGATTTCAATAGTAGTGGGAATCATGTACTGATTGG
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------gtaagcctgccacctttgg------tcttaccatttgatg---ttacc--agatagtatttatctagctttgaaattttttaaacttctgtgcagGATAGTCCATTAGTGATCGAGTGTTTTGATTTCAATAGCAGCGGTGATCATGTACTTATTGG
upper sequence: Vv14s0030g00540.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G08860.1 (Arabidopsis thaliana), 3'ss of exon 7
tgggtgtcaaatccacattttttggaaccaattcgatgtcttggtgggtctaccccagccgacaggttactaaactttctgtttctcatttgctttgcagGATAACCCATTAGTTATCGAGTGCTTTGATTTCAATAGTAGTGGGAATCATGTACTGATTGG
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-------gtaagcta-gttgtttcactgtaattcaatgt----atacatttgaaataatcattatgtta---aattgattgtttt--gttta---tgcagGACACCCCATTGGTTATCGAGTGCTTAGATTTTAACACCAGTGGGAATCATGAACTTATTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggtctaccccagccgacaggttactaaactttctgtttctcatttgctttgcagGATAACCCATTAGTTATCGAGTGCTTTGATTTCAATAGTAGTGGGAATCATGTACTGATTGG
tactaaa putative branch site (score: 1)
ctttctgtttctcatt CT-rich tract
ttactaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgggtgtcaaatccacattttttggaaccaattcgatgtcttggtgggtctaccccagccgacaggttactaaactttctgtttctcatttgctttgcagGATAACCCATTAGTTATCGAGTGCTTTGATTTCAATAGTAGTGGGAATCATGTACTGATTGG
tgggtgt
- - - - aaatcca
- - - - - - - - - - - - gaaccaa
- - - - - - - - - - - - - - - - - - - - -tggtggg
- - - - - - - - - - - - - - - - - - - - - - - - - tacccca