Sequence
atgc intronic sequence ATGC exonic sequencegtgtattaaattttgtttgttttgttccatacacctcctctttgagatattgtcatgattatgttgtacctccatgcgaagcttttgacatgtaattctcagGTTAACTGTAGAAGAGCAGCTGCAGCTGCCTTCCAAGAGAATGTTGGAAGACAAGGGAACTACCCACATGGAATTGACATAGTGAATGCCGCTGACTATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os10g36490.1 (Oryza sativa), 3'ss of exon 7
---gtgtattaaattttgtttgttttgttccatacacctcctctttgagatattgtcatgattatgttgtacctccatgcgaagcttttgacatgtaattctcagGTTAACTGTAGAAGAGCAGCTGCAGCTGCCTTCCAAGAGAATGTTGGAAGACAAGGGAACTACCCACATGGAATTGACATAGTGAATGCCGCTGACTATT
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ttcatttgtggcatctagatt-ttgtgatgcattctctagcatcttagtattttttt----tcttactgccgaatcatgtgtgtccttatacatatatgatgtagGTTAATTGCAGAAGAGCTGCTTCTGCTGCCTTTCAAGAGAATGTTGGAAGACAGGGAAATTTTCCGCATGGCATTGATATTGTGAATGCAGCAGACTACT
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G303758_T01 (Zea mays), 3'ss of exon 1
gtgtattaaattttgtttgttttgttcca-tacacctcctctttgag---atattgtcatgattatgttgtacctccatgcgaagctt-ttgac-atgtaattctcagGTTAACTGTAGAAGAGCAGCTGCAGCTGCCTTCCAAGAGAATGTTGGAAGACAAGGGAACTACCCACATGGAATTGACATAGTGAATGCCGCTGACTATT
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-------aatttacatttgtcgcacccaaatgttctgtacttctgatcccatactattttgactacatcatttatcttactgatttttattgtctatgtaatagt-agGTTAATTGTAGAAGAGCTGCTTCTGCTGCCTTTCAAGAGAATGTTGGAAGACAGGGAACTTTCCCACATGGCATTGATATTGTGAATACGACAGATTACT
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 8
gtgtattaaattttgtttgttttgttccatacacctcctctttgagatattgtcatgattatgttgtacctccatgcgaagcttttgacatgtaattctcagGTTAACTGTAGAAGAGCAGCTGCAGCTGCCTTCCAAGAGAATGTTGGAAGACAAGGGAACTACCCACATGGAATTGACATAGTGAATGCCGCTGACTATT
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gtcc-ttatatcttttatgtccttctcatgacatgatttgttttagac--tattcacttcatgtgaaaaga--atccctaact---aacctgtgatacttagGTTAACTGCAGAAGAGCAGCAGCAGCTGCTTTTCAAGAGAATGTTGGAAGACAAGGGAATTATCCACATGGAATTGACATAGTGAATACTGCGGATTATT
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G24470.1 (Glycine max), 3'ss of exon 9
gtgtattaaattttgtttgttttgttccatacacctcctctttgagatattgtcatgattatgttgtacctccatgcgaagcttttgacatgtaattctcagGTTAACTGTAGAAGAGCAGCTGCAGCTGCCTTCCAAGAGAATGTTGGAAGACAAGGGAACTACCCACATGGAATTGACATAGTGAATGCCGCTGACTATT
|| ||| || || | ||| | || ||| | ||| ||| | | | |||| | || || | || ||| || || |||||||||| ||||||||||| || ||||| || |||||||||||||||||||||||||| || ||| |||||||||||||||||||| | || || ||||
gtcc-ttatatcttttatgtccttctcatgacatgatttgttttagac--tattcacttcatgtgaaaagaat-cgctaa----ctaacctgtgatacttagGTTAACTGCAGAAGAGCAGCAGCTGCTGCTTTTCAAGAGAATGTTGGAAGACAAGGGAATTATCCAAATGGAATTGACATAGTGAATACTGCAGATTATT
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G60740.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgtattaaattttgttt--gttttgttccatacacctcctctttgagatattgtcatgattatgttgtacctccatgcgaagcttttgacatgtaattctcagGTTAACTGTAGAAGAGCAGCTGCAGCTGCCTTCCAAGAGAATGTTGGAAGACAAGGGAACTACCCACATGGAATTGACATAGTGAATGCCGCTGACTATT
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--gtactaatccctcttttgactataattttttcgccgtttctt----gctttattttgaagttctctttattgcgtataatttatttatttctt--ttgtcagGTGAACTGTAGAAGGGCTGCTGCCGCTGCTTTCCAAGAGAATGTTGGAAGACAAGGAAATTACCCTCATGGGATTGACATAGTGAGCATAGCTGATTATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgtcatgattatgttgtacctccatgcgaagcttttgacatgtaattctcagGTTAACTGTAGAAGAGCAGCTGCAGCTGCCTTCCAAGAGAATGTTGGAAGACAAGGGAACTACCCACATGGAATTGACATAGTGAATGCCGCTGACTATT
ttttgac putative branch site (score: 3)
ttctc putative PPT
atgattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtattaaattttgtttgttttgttccatacacctcctctttgagatattgtcatgattatgttgtacctccatgcgaagcttttgacatgtaattctcagGTTAACTGTAGAAGAGCAGCTGCAGCTGCCTTCCAAGAGAATGTTGGAAGACAAGGGAACTACCCACATGGAATTGACATAGTGAATGCCGCTGACTATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA