Sequence
atgc intronic sequence ATGC exonic sequencegtagctgaattataacattactcctcacatgggattctactgtgattttgtttttagcaaaccttctatctctttattgttttgttgatgttgtggcctgacttttagGTGCAACACCTGATCGAGAAATGTTTGATCTTCCACATGACCAAAGAACAGTGCATGGAAGCCCTTTCCAAACATGCTGACATCCAACCAGTCATCACGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0036g00440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G43720.1 (Glycine max), 3'ss of exon 1
gtagctgaattataacattactcctcacatgggattctactgtgattttgtttttagcaaaccttctatctctttattgttttgttgatgttgtggcctgact--tttagGTGCAACACCTGATCGAGAAATGTTTGATCTTCCACATGACCAAAGAACAGTGCATGGAAGCCCTTTCCAAACATGCTGACATCCAACCAGTCATCACGT
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--------------------gtatatatatatagctttaaatt--ctttgttattgttataaagatcatcgtgttgttttgacaagttttctacgaattaattaatatagGTGCAGCATCTGATCGAGAAGTGTTTGATCTTTCACATGACCAAGGAAGAATGCATGGAAGCGCTCTCTAAACATGCAAATATTAATCCTATTATAACAT
upper sequence: Vv14s0036g00440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G38420.1 (Glycine max), 3'ss of exon 1
gtagctgaattataacattactcctcacatgggattctactgtgattttgtttttagcaaaccttctatctctttattgttttgttgatgttgtggcctgact--tttagGTGCAACACCTGATCGAGAAATGTTTGATCTTCCACATGACCAAAGAACAGTGCATGGAAGCCCTTTCCAAACATGCTGACATCCAACCAGTCATCACGT
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----------------------------gtaatattatagctttaaattatttcttattataagaccatcgttttgttttgacaagttttctacgaattaattgatatagGTGCAGCATCTGATCGAGAAGTGTTTGATCTTTCACATGACCAAGGAAGAATGCATGGAAGCTCTCTCTAAACATGCAAATATTAATCCTATTATAACAT
upper sequence: Vv14s0036g00440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G52240.1 (Glycine max), 3'ss of exon 1
gtagctgaattataacattactcctcacatgggattctactgtgattttgtttttagca--aaccttctat--ctctttattgttttgttgatgttgtggcctgacttttagGTGCAACACCTGATCGAGAAATGTTTGATCTTCCACATGACCAAAGAACAGTGCATGGAAGCCCTTTCCAAACATGCTGACATCCAACCAGTCATCACGT
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gtaagagagcagctagcttcaacttcagctttaattatcttcaatttttattttttgtgttgatcatatgtaccctttcatgatcgttgtgatatgtttggat-acaattagGTGCACCACCTGATTGAGAAGTGTTTGACCTTTCACATGTCAAAGGAAGAGTGCATGGAAGCTCTCTCCAAGCATGCAAATATTAAGCCTGTCATAACAT
upper sequence: Vv14s0036g00440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G10620.1 (Glycine max), 3'ss of exon 1
gtagctgaattataacattactcctcacatgggattctactgtgattttgtttttagcaaaccttctatctctttattgttttgttgatgttgtggcctgact--tttagGTGCAACACCTGATCGAGAAATGTTTGATCTTCCACATGACCAAAGAACAGTGCATGGAAGCCCTTTCCAAACATGCTGACATCCAACCAGTCATCACGT
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gtaagagggcta----gctacaacttctgctctatctttctttttttttttttttgtttgatcatatatacccctttcatgatcgttgtgacatgcttggataaaattagGTGCAGCACATGATTGAGAAGTGTTTGATCTTTCACATGTCAAAGGAAGAATGCATGGAAGCTCTCTCCAAGCATGCAAATATTAAGCCTGTCATAACAT
upper sequence: Vv14s0036g00440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G55240.1 (Arabidopsis thaliana), 3'ss of exon 1
-----------gtagctgaattataacat-tactcctcacatgg--gattctactg-tgattttgttt-ttagcaaaccttctatct-ctttattgttttgttgatgttgtggcctgacttttagGTGCAACACCTGATCGAGAAATGTTTGATCTTCCACATGACCAAAGAACAGTGCATGGAAGCCCTTTCCAAACATGCTGACATCCAACCAGTCATCACGT
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gtaatattatattgattcaagaacctcatgtacttctccggccgtcgattctatgaatgatcttatctatttatcttttacgtatgtacctcaatatctt-tggatgt-gtgtatgtatgtatagGTGCAGCACATGATAGAGAAATGTTTGATCTTCCATATGAGCAAAGAAGAGTGTGTGGAAGCTCTCTCTAAGCATGCAAACATCACTCCTGTCATCACCT
upper sequence: Vv14s0036g00440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G28990.1 (Arabidopsis thaliana), 3'ss of exon 1
---gtagctgaattata-----acattactcctcacatgggat---tctactgtgattttgtttttagcaaaccttctatctctttattgttttgttgatgttgtg-gcctgacttttagGTGCAACACCTGATCGAGAAATGTTTGATCTTCCACATGACCAAAGAACAGTGCATGGAAGCCCTTTCCAAACATGCTGACATCCAACCAGTCATCACGT
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gtaataactcgaacatgtgcatgcgtttcttctcatgaaggaacagtttcttttaggtacattcttaaggg------tatatatataaaaacgtgatagtgtgtcatgtgttatgtatagGTGCAACACATGATAGAGACATGTTTGACCTTTAACATGAGCAAAGAGGAATGCATGGAAGCTCTCTCAGAGAATGCAAACATCAATCCCATCATCACGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagcaaaccttctatctctttattgttttgttgatgttgtggcctgacttttagGTGCAACACCTGATCGAGAAATGTTTGATCTTCCACATGACCAAAGAACAGTGCATGGAAGCCCTTTCCAAACATGCTGACATCCAACCAGTCATCACGT
gcctgac putative branch site (score: 3)
ctttt CT-rich tract
tttattgttttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagctgaattataacattactcctcacatgggattctactgtgattttgtttttagcaaaccttctatctctttattgttttgttgatgttgtggcctgacttttagGTGCAACACCTGATCGAGAAATGTTTGATCTTCCACATGACCAAAGAACAGTGCATGGAAGCCCTTTCCAAACATGCTGACATCCAACCAGTCATCACGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG