Sequence
atgc intronic sequence ATGC exonic sequence...tgtgagaataaaatgagggagcacatcatgtgaggcttgtcatcatattgtcagtagtacagtcaagagttatttatagcacttgatactttatttgcagTTAAGAGTAGAAGATATTTTAATCAGAGGGCTCAAATGGAGCAAGCTACTTGATCCTAACAAGAAGGGCCAGTGGTGGTTGTCCGGGAATATGACTTCCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G29170.1 (Glycine max), 3'ss of exon 9
tgtgagaataaaatgagggagcacatcatgtgaggcttgtcatcatattgtcagtagtacagtcaagagttatttata---gcacttgatactttatttgcagTTAAGAGTAGAAGATATTTTAATCAGAGGGCTCAAATGGAGCAAGCTACTTGATCCTAACAAGAAGGGCCAGTGGTGGTTGTCCGGGAATATGACTTCCC
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--tgagaaagatacttgtgatcatcctttgaattg-ttgctattcaaaagacattcatatcatcatacgtccttcaaattcttaatttaaatttggttttcagTTAAGAGTTGATGACATTTTGATTAGAGGGCTTAAATGGAGCAAATTACTTGATCCTGACAAGAAGGGCCAATGGTGGTTGTCTGGGGATGTGGCTTCTT
upper sequence: Vv08s0056g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G04250.1 (Glycine max), 3'ss of exon 9
----tgtgagaataaaatgagggagcacatcatgtgaggcttgtcatcatattgtcagtagtacagtcaagagttatttata---gcacttgatactttatttgcagTTAAGAGTAGAAGATATTTTAATCAGAGGGCTCAAATGGAGCAAGCTACTTGATCCTAACAAGAAGGGCCAGTGGTGGTTGTCCGGGAATATGACTTCCC
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atgtattgtgaaaaagatacttgtgatcatcatttgaa--ttgttgttat----tcaaaag-acattcatatgcccttcaaattcttaatttaaattttgttttcagTTGAGAGTTGATGACATTTTGATTAGAGGGTTTAAATGGAGCAAGTTACTTGATCCTGACAAGAAGGGCCAATGGTGGTTGTCTGGGGATGTGGCTTCTT
upper sequence: Vv08s0056g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G17930.1 (Arabidopsis thaliana), 3'ss of exon 11
----------------------------------------------------------tgtgagaataaaatgagggagcacatcatgtgaggcttg--tcatcatattgtcagtagtacagtcaagagttatttatagcacttgatactttatttgcagTTAAGAGTAGAAGATATTTTAATCAGAGGGCTCAAATGGAGCAAGCTACTTGATCCTAACAAGAAGGGCCAGTGGTGGTTGTCCGGGAATATGACTTCCC
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gtaatattttagcgctctattcctcgaaatgttataaaatggattccatcatgacaattataaacatgta-tgcttctgcttattaggtggcttttggattagtaagttttgactaaaatg--catttgtttttgtccgttttttttataatttacccagTTGAGAGTAGAAGAAGTGTTATTAAGAGGGCTTACATGGAGCAAGCTGCTTGACCCCGAGAAGAAGGGTCAGTGGTGGCTTTCTGGCGATTTGGTGGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgtcagtagtacagtcaagagttatttatagcacttgatactttatttgcagTTAAGAGTAGAAGATATTTTAATCAGAGGGCTCAAATGGAGCAAGCTACTTGATCCTAACAAGAAGGGCCAGTGGTGGTTGTCCGGGAATATGACTTCCC
acttgat putative branch site (score: 5)
ctttattt CT-rich tract
aagagttatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgagaataaaatgagggagcacatcatgtgaggcttgtcatcatattgtcagtagtacagtcaagagttatttatagcacttgatactttatttgcagTTAAGAGTAGAAGATATTTTAATCAGAGGGCTCAAATGGAGCAAGCTACTTGATCCTAACAAGAAGGGCCAGTGGTGGTTGTCCGGGAATATGACTTCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - aataaaa
- - - - - - - - - - - - - catgtga
- - - - - - - - - - - - - - - - - gcttgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcacttg