Sequence
atgc intronic sequence ATGC exonic sequence...tgctcttcaatgccttcatcagtatgtatgtagattcatgtaaaaaatatgttgatgtttttattggcactctaatggcttgtatttgtaaattgcaaagTTCTCTAGATCTGGTAATCAGCTGCTTGGGACTCCATTGGACGAATGATCTTCCTGGAGCCATGATACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g06830.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G37130.2 (Glycine max), 3'ss of exon 4
tgctcttcaatgccttcatcagtatgtatgtagattcatgtaaaaaatatgttgatgtttttattggcactctaatggcttgtatttgtaaattgcaaagTTCTCTAGATCTGGTAATCAGCTGCTTGGGACTCCATTGGACGAATGATCTTCCTGGAGCCATGATACAG
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--------------gcaattataattgattttatttcatgtcacgctt---ttcctgttttggattgttcttacttag---atattggtttgtt-tgcagCTCTGTGGATTTGGTTGTTAGTTGCTTGGGACTACACTGGACTAATGATCTGCCTGGAGCAATGATACAG
upper sequence: Vv18s0001g06830.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G43650.1 (Glycine max), 3'ss of exon 3
tgctcttcaatgccttcatcagtatgtatgtagattcatgtaaaaaatatgttgatgtttttattggcactctaatggcttgtatttgtaaattgcaaagTTCTCTAGATCTGGTAATCAGCTGCTTGGGACTCCATTGGACGAATGATCTTCCTGGAGCCATGATACAG
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--------------gcaattataattgattttatttcatgtca----cgcttttctgttttggattgttcttactta---tatattggtttgtt-tgcagCTCTGTGGATTTGGTTGTTAGTTGCTTGGGACTACACTGGACTAATGATCTGCCTGGAGCAATGATACAG
upper sequence: Vv18s0001g06830.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G22800.1 (Arabidopsis thaliana), 3'ss of exon 4
----------tgctctt-caatgccttcatcagtatgtatgtagattcatgtaaaaaatatgttgatgtttttattggcactctaatggcttgt---atttgtaaattgcaaagTTCTCTAGATCTGGTAATCAGCTGCTTGGGACTCCATTGGACGAATGATCTTCCTGGAGCCATGATACAG
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gtaacaaggacgttattgtaaaacctgtttttctttgtttttttccccttgctgcgactcactagag--ttctattacc-tactaatatcttgtcaaatatgttgtatgtgaagTTCGGTTGATTTGATCATTAGTTCGTTGGGGCTTCACTGGACAAATGATCTTCCTGGATCCATGATACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatgttgatgtttttattggcactctaatggcttgtatttgtaaattgcaaagTTCTCTAGATCTGGTAATCAGCTGCTTGGGACTCCATTGGACGAATGATCTTCCTGGAGCCATGATACAG
ctctaat putative branch site (score: 3)
ttgtatttgtaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctcttcaatgccttcatcagtatgtatgtagattcatgtaaaaaatatgttgatgtttttattggcactctaatggcttgtatttgtaaattgcaaagTTCTCTAGATCTGGTAATCAGCTGCTTGGGACTCCATTGGACGAATGATCTTCCTGGAGCCATGATACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - -caatgcc
- - - - - - - - - -cagtatg
- - - - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cactcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggcttg