Sequence
atgc intronic sequence ATGC exonic sequencegtaagagaatatcttgaattttcttttctttcttttgatttaatggccttattaagaagttcttttagcattccttaagaagcatataaggaacatagactcaagttaaacattgtcctccgttctgggttgaactttgttagattagttctgtgctcaatcttccatctcttaattatgatatttttgttcttcagGTTTTCGGGGCTCTTAGTCAACTGGAGTGTGGCAGTGAAGTTTGGGAACGCATTTTATTCCAATCTTTTGAGCTTTTGAGTGACTCAAATGATGAACCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G06960.1 (Glycine max), 3'ss of exon 6
gtaagagaatatcttgaattttcttttctttcttttgatttaatggccttattaagaagttcttttagcattccttaagaagcatataaggaacatagactcaagttaaacattgtcctccgttctgggttgaactttgttagattagttctgtgctcaatcttccatctcttaattatgatatttttgttcttcagGTTTTCGGGGCTCTTAGTCAACTGGAGTGTGGCAGTGAAGTTTGGGAACGCATTTTATTCCAATCTTTTGAGCTTTTGAGTGACTCAAATGATGAACCAC
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----------------------------------------------------------------------------------------------------------------------------------------------------------gtttgcatttctttctcctattgatgaaatttt-atttctcagGTTTATGGGGCTCTTAGTCAATTGGAGTGTGGTAGTGAAGTGTGGGAACGCATTCTGTTTCAGTCATTTGAGCTTTTGACAGACTCAAATGATGAACCCC
upper sequence: Vv04s0008g05690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G07050.1 (Glycine max), 3'ss of exon 5
gtaagagaatatcttgaattttcttttctttcttttgatttaatggccttattaagaagttcttttagcattccttaagaagcatataaggaacatagactcaagttaaacattgtcctccgttctgggttgaactttgttagattagttctgtgctcaatct----tccatctcttaattatgatatttttgttcttcagGTTTTCGGGGCTCTTAGTCAACTGGAGTGTGGCAGTGAAGTTTGGGAACGCATTTTATTCCAATCTTTTGAGCTTTTGAGTGACTCAAATGATGAACCAC
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-------------gtgagactaatatattttttccc---ctaaatgccttatttgtattgttttatctcatgcatttaacattcagcctggaacacaatcttaatttagacatactttttc--tgcatttccaacattaccgatatgatgttgaatatagtttgcatttcttctcctattgatgaaatttt-atttctcagGTTTACGGAGCTCTTAGTCAATTGGAGTGTGGTAGTGAAGTGTGGGAACGCATTCTGTTTCAGTCATTTGAGCTTTTGACAGACTCAAATGACGAACCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattagttctgtgctcaatcttccatctcttaattatgatatttttgttcttcagGTTTTCGGGGCTCTTAGTCAACTGGAGTGTGGCAGTGAAGTTTGGGAACGCATTTTATTCCAATCTTTTGAGCTTTTGAGTGACTCAAATGATGAACCAC
tcttaat putative branch site (score: 3)
tatttttgttcttc putative PPT
ttaattatgatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagagaatatcttgaattttcttttctttcttttgatttaatggccttattaagaagttcttttagcattccttaagaagcatataaggaacatagactcaagttaaacattgtcctccgttctgggttgaactttgttagattagttctgtgctcaatcttccatctcttaattatgatatttttgttcttcagGTTTTCGGGGCTCTTAGTCAACTGGAGTGTGGCAGTGAAGTTTGGGAACGCATTTTATTCCAATCTTTTGAGCTTTTGAGTGACTCAAATGATGAACCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT