Sequence
atgc intronic sequence ATGC exonic sequence...tccattctctcgctctctttctcaactatatgttgttgctactctgattttctcactgtacaaatttctaccatctgagctgcttgaactggcgttgcagTTGTGGTGATGGTACTCTTGGTGTACCAAGCCAAAGAGGTGATAATTATGAATGTAGAAATATGAAGCTTCTTCTCAAACAGCAACAAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os06g16390.1 (Oryza sativa), 3'ss of exon 12
--tccattctctcgctctctttctcaactatatgttgttgctactctgattttctcactgtacaaatttctaccatctgagctgcttgaactggcgttgcagTTGTGGTGATGGTACTCTTGGTGTACCAAGCCAAAGAGGTGATAATTATGAATGTAGAAATATGAAGCTTCTTCTCAAACAGCAACAAAGG
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tattcaatttcaattactgtttcttcatccctaattttt-ctagaacaaagcgccagtacattgaacttctatttttctacctgtactttctattgt-gcagGTGCGGTGATGGTACATTGGGAGTCCCTAACCAAAGAGGTGATAATTATGAATGCCGGAACATGAAACTGCTGCTTAAACAGCAACAAAGG
upper sequence: Vv07s0031g00320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G157820_T02 (Zea mays), 3'ss of exon 12
--------tccattctctcgctctctttctcaactatatgttgttgctactctgattttctcactgtac-aaatttctaccatctgagctgcttgaactggcgttgcagTTGTGGTGATGGTACTCTTGGTGTACCAAGCCAAAGAGGTGATAATTATGAATGTAGAAATATGAAGCTTCTTCTCAAACAGCAACAAAGG
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agcttgaactaattttctagagctggtttaaatccat---ttttttctagaataaatca-tcagtacactgaactacaatccacttatatttttcaact-----tgcagGTGTGGTGATGGTACATTGGGAGTTCCAAACCAGAGAGGAGATAATTATGAATGCCGGAACATGAAACTGCTTCTTAAACAACAACAAAGG
upper sequence: Vv07s0031g00320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA01G39490.1 (Glycine max), 3'ss of exon 14
tccattctctcgctct-ctttctcaactatatgttgttgctactctgattttctcactgtacaaatttctaccatctgagctgcttgaac--tggcgttgcagTTGTGGTGATGGTACTCTTGGTGTACCAAGCCAAAGAGGTGATAATTATGAATGTAGAAATATGAAGCTTCTTCTCAAACAGCAACAAAGG
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-aagtgcttataatatactattcctgttatgt-tgattactagtct-atctcaagtctctgtttgctatgatacttttttctatttgggtcttattgttgcagTTGTGGCGATGGTACACTAGGGATTCCTAGCCAAAGAGGGGATAATTATGAATGTAGAAACATGAAGCTTCTTCTCAAACAGCAGCAAAGG
upper sequence: Vv07s0031g00320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G05760.1 (Glycine max), 3'ss of exon 14
--tccattctctcgctctctttctcaactatatgttgttgctactctgattttc--tcactgtacaaatttctaccatctgagctgcttgaactggcgttgcagTTGTGGTGATGGTACTCTTGGTGTACCAAGCCAAAGAGGTGATAATTATGAATGTAGAAATATGAAGCTTCTTCTCAAACAGCAACAAAGG
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tgcttatactatattattcctgttacgttgattactagtctatctcaagtctctgtttgctatgatacattttgctatttgggt--ctt--attattgttgcagTTGTGGCGATGGTACACTTGGGATTCCTAGCCAAAGAGGGGACAATTATGAATGTAGAAACATGAAGCTTCTTCTCAAACAACAGCAAAGG
upper sequence: Vv07s0031g00320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT2G23380.1 (Arabidopsis thaliana), 3'ss of exon 12
-----------------------tccattctc-tcgctctctttctcaactatatgttgttgctactctgattttctcactgtacaaatttctaccatctgagctgcttgaactggcgt-tgcagTTGTGGTGATGGTACTCTTGGTGTACCAAGCCAAAGAGGTGATAATTATGAATGTAGAAATATGAAGCTTCTTCTCAAACAGCAACAAAGG
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gtaagtcttattggggatgcaaatccatcctaattggtttcttagaaaatgctcaagaaatgcaactttttttttagtagttccagatgcacttatactgtgtctgaatgaatttgaatgtgtagTGGTGGGGATGGTTCGCTTGGGGTCCCAAGCCAAAGAGGCGATAATTATGAGTGCAGGAATATGAAATTGCTCCTGAAACAACAACAAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattttctcactgtacaaatttctaccatctgagctgcttgaactggcgttgcagTTGTGGTGATGGTACTCTTGGTGTACCAAGCCAAAGAGGTGATAATTATGAATGTAGAAATATGAAGCTTCTTCTCAAACAGCAACAAAGG
ttctcac putative branch site (score: 2)
tacaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccattctctcgctctctttctcaactatatgttgttgctactctgattttctcactgtacaaatttctaccatctgagctgcttgaactggcgttgcagTTGTGGTGATGGTACTCTTGGTGTACCAAGCCAAAGAGGTGATAATTATGAATGTAGAAATATGAAGCTTCTTCTCAAACAGCAACAAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
-ccattct
- - - - - cgctctc
- - - - - - - - - -tctcaac
- - - - - - - - - - - - - - - - - -ttgctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttga