Sequence
atgc intronic sequence ATGC exonic sequence...cccaggttgaaggaataagcaattgctttttttcttttgttgtgtatttatgtgatgtatttattctcattccacatactttttgcgttatgttttgcagGTTGGTATCTGGTATGGACAATGCAGTCATTGTTGACCAATTTTTTGACAAATCAAATTGGTGTATTATCCTTGAGAAAACATTATGACAAACCAAATTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g04610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g51490.1 (Oryza sativa), 3'ss of exon 2
---cccaggttgaaggaataagcaattgctttttttcttttgttgtgtatttatgtgatgtatttattctcattccacatactttttgcgttatgtt-ttgcagGTTGGTATCTGGTATGGACAATGCAGTCATTGTTGACCAATTTTTTGACAAATCAAATTGGTGTATTATCCTTGAGAAAACATTATGACA-AACCAAATTT
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taacttataatatgaaattgagggagtatgtttgatctctggtcttttggttg---gaaatatctcctatc-tctggcacattgtctcattaatttcatttcagGTTAGTTGCTGGTATAAACAATGCAGTTGTTGTTGACCAATTCTATGACAAATCAAACTGGTGCATCGTTCTTGAGAAGCTTTGAACATGCAGCTAAAAG-
upper sequence: Vv18s0001g04610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G12110.1 (Glycine max), 3'ss of exon 2
cccaggttgaaggaataagcaattgcttttttt----cttttgttgtgtatttatgtgatgtatttattctcattccacatactttttgcgttatgttttgcagGTTGGTATCTGGTATGGACAATGCAGTCATTGTTGACCAATTTTTTGACAAATCAAATTGGTGTATTATCCTTGAGAAAACATTATGACAAACCAAATTT
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---atagaagaataattaagaactacgttttaggtgactttttatgcttatatgcatgatgcacgagttctgatttctaacttatttt-tgtatctttttgcagTTTGACAACTGGAATAAACAATGCCAGAATTGTTGATCAGTTTTTTGATAAATCCAACTGGTGTATTATTCTTGAGAAGACAGTGTGA------------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttatgtgatgtatttattctcattccacatactttttgcgttatgttttgcagGTTGGTATCTGGTATGGACAATGCAGTCATTGTTGACCAATTTTTTGACAAATCAAATTGGTGTATTATCCTTGAGAAAACATTATGACAAACCAAATTT
tatttattctcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cccaggttgaaggaataagcaattgctttttttcttttgttgtgtatttatgtgatgtatttattctcattccacatactttttgcgttatgttttgcagGTTGGTATCTGGTATGGACAATGCAGTCATTGTTGACCAATTTTTTGACAAATCAAATTGGTGTATTATCCTTGAGAAAACATTATGACAAACCAAATTT
- - - - - -ggaataa
- - - - - - - - - -caattgc
- - - - - - - - - - - - - - - - - - -tgttgtg