Sequence
atgc intronic sequence ATGC exonic sequencegtaattacttgatcacatggccattttctgcattttaaaatttactctactacatacctcaattcaatgtatatgcttcttagaaagtattgaataatttatctagaaattatcgggcataagagaatttgttactgatgtgtagGCAGAAGCTGCTGCTGCTGCTGGTGAAAGCAGTTTCAGATCTTTCATGGTGGCTGTACAGCGTTGTGCTAGCAGTGTGGCTATTGTTCAGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os12g13590.1 (Oryza sativa), 3'ss of exon 16
gtaattacttgatcacatggccattttctgcattttaa-aatttactctactacatacctcaattcaatgtatatgcttcttagaaagtattgaataatttatctagaaattatcgggcataagagaatttgttactgatgtgtagGCAGAAGCTGCTGCTGCTGCTGGTGAAAGCAGTTTCAGATCTTTCATGGTGGCTGTACAGCGTTGTGCTAGCAGTGTGGCTATTGTTCAGCAA
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---------------------gtatgtctgctttccaatggtttaatctaccattcatttttgg-caat-cacaccccattt-----gtatacga-aatttatcattgaatgaa-agatgcagctaggtttgaaatattttttcagGCAGAGGCGGCAGCTGCTGCAGGTGAGAGTAGCTTTAGATCCTTCATGATTGCTGTGCAGCGTTGTGCTAGCAGTGTGGCTATTCTTCAGCAG
upper sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 16
gtaattacttgatcacatggccattttctgcattttaaaatttactctactacatacctcaattcaatgtatatgcttcttagaaagtattgaataatttatctagaaattatcgggcataa--gagaatttgttactgatgtgtagGCAGAAGCTGCTGCTGCTGCTGGTGAAAGCAGTTTCAGATCTTTCATGGTGGCTGTACAGCGTTGTGCTAGCAGTGTGGCTATTGTTCAGCAA
|| ||| | | || || ||| ||| ||| | ||| | ||| | | | | | | | | | |||| ||| || || |||| || ||||||| || || || |||||||||||||| |||||||||||||| ||| | |||||||| |||| || |||||||| |||||| |||| |||
-------------------------------------------------gtaattacataatttttttgcatactcttgttaaagtatatagtatatatgagc-acatttcaccagacatattcaagatttatttgttgatatgcagGCAGAGGCGGCAGCAGCTGCTGGTGAAAGTAGTTTCAGATCTTTTATGATTGCTGTACAACGTTCTGGAAGCAGTGTAGCTATTATTCAACAA
upper sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA16G01660.1 (Glycine max), 3'ss of exon 16
gtaattacttgatcacatggccattttctgcattttaaaatttactctactacatacctcaattcaatgtatatgcttcttagaaagtattgaataatttatctagaaattatcgggcataa--gagaatttgttactgatgtgtagGCAGAAGCTGCTGCTGCTGCTGGTGAAAGCAGTTTCAGATCTTTCATGGTGGCTGTACAGCGTTGTGCTAGCAGTGTGGCTATTGTTCAGCAA
|| ||| | | || || || ||| ||| | ||| | | | | | | | | | | | |||| ||| || || |||| || ||||||| || || || |||||||||||||| |||||||||||||||||| | ||||| || |||| || |||||||| |||||| |||| |||
-------------------------------------------------gtaattacatgatttttttgcatgctcttgttaaagtatatagtacatatgagc-acatttcaccatacatattcaagatttatttgttgatatgcagGCAGAGGCGGCGGCAGCTGCTGGTGAAAGTAGTTTCAGATCTTTCATGATTGCTGTGCAACGTTCTGGAAGCAGTGTAGCTATTATTCAACAA
upper sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT5G12370.1 (Arabidopsis thaliana), 3'ss of exon 17
gtaattacttgatcacatggccattttctgcattttaaaatttactctactacatacctcaattcaatgtatatgcttcttagaaagtattgaataatttatctagaaattatcgggcataagagaatttgttactgatgtgtagGCAGAAGCTGCTGCTGCTGCTGGTGAAAGCAGTTTCAGATCTTTCATGGTGGCTGTACAGCGTTGTGCTAGCAGTGTGGCTATTGTTCAGCAA
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----------------------------------------------gtaattcct-tctcttttctatttctcactatttgaaatgctattg------ttatgtggagttaatt-------atagtttctttgattgtttctcagGCAGAAGCTGCTGCTGCTGCTGGTGAAAGTAGCTTTAAATCCTTCATGGTTGCTGTGCAACGTTGCGGTAGCAGTGTTGCTATAGTTCAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaataatttatctagaaattatcgggcataagagaatttgttactgatgtgtagGCAGAAGCTGCTGCTGCTGCTGGTGAAAGCAGTTTCAGATCTTTCATGGTGGCTGTACAGCGTTGTGCTAGCAGTGTGGCTATTGTTCAGCAA
tactgat putative branch site (score: 2)
aatttatctagaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattacttgatcacatggccattttctgcattttaaaatttactctactacatacctcaattcaatgtatatgcttcttagaaagtattgaataatttatctagaaattatcgggcataagagaatttgttactgatgtgtagGCAGAAGCTGCTGCTGCTGCTGGTGAAAGCAGTTTCAGATCTTTCATGGTGGCTGTACAGCGTTGTGCTAGCAGTGTGGCTATTGTTCAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG