Sequence
atgc intronic sequence ATGC exonic sequence...gcttattggttgcaattgtctgattacctcttaatgttgtaaaatgcaatgaaatattttgtataattctcatttgattcttgttttgttctctttgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os04g53760.2 (Oryza sativa), 3'ss of exon 11
gcttattggttgcaattgtctgattacctc--ttaatgttgtaaaatgcaatgaaatattttgtataattctca-tttg--attcttgttttgttctctt----tgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCAT---
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-------aatcaccattatcttgaaactctgactgatgtt-tctagtttatttcagt-tttgaagtacttgtcaatttggtatgcttaagttatttttgcatgatgcagGTTTGCATATTTGCTTATGGTCAAACAGGGTCTGGTAAAACTTATACAATGATGGGTCCACCAGGG---CGTGATCAGAAAGGCATCATACCTCGTTCTTTGG
upper sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G114861_T01 (Zea mays), 3'ss of exon 10
----gcttattggttgcaattgtctgattacctcttaatgttgtaaaatgcaatgaaatattttgtataattctcatttgattcttgttttgttctctttgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCAT---
| || | || | || || | | ||| ||||| | | ||| | ||||| | | || || ||| | || | | |||| |||||||||||||||||||| || || ||||||||||| |||||||||||||| | |||| | | ||| | ||||| | |||||||| || |
acataatcat-gtttctgtcagcctcatgtaatgtcaat-ctgtaattttcccc-aaacaacttgtaatagtaatatcatgtttatgtgt-gtctgcgatacagGTATGCATATTTGCATATGGTCAAACTGGATCTGGTAAAACTTATACAATGATGGGTAAACCAGGAAAT---GATCAAAAAGGGATAATACCTCGTTCTTTGG
upper sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G06690.1 (Glycine max), 3'ss of exon 12
-------gcttattggttgcaattgtctgattacctcttaatgttgtaaaatgcaatgaaatattttgtataattctcatttgattcttgttttgttctctttgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCAT
| || ||| || ||| | || | | | | | | | || | ||| | | | | | | | | || |||||| | | |||| ||||| ||||||||||| ||||||||||| || ||||||||||| |||||||| | ||| || || | ||| |||||| ||||||| || || |
ggggtttatctttttgtttcatatgttttcttgcttttgtttttgttgatttgggtttaaaccatgtct-tgacacaga---gggcaatggtttgttatg---gcagGTGTGCATCTTTGCATATGGACAGACAGGTTCAGGAAAAACCTATACTATGATGGGTAAGCCTGATGCGCCAGATCTGAAAGGATTGATACCACGTTCTT
upper sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G32450.1 (Glycine max), 3'ss of exon 10
-------gcttattggttg-caattgtctgattacctcttaatgttgtaaaatgcaatgaaatattttgtataattctcatttgattcttgttttgttctctttgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCAT
|| | | | ||||||| |||| | | || || | | ||| | | || ||| || | || | | | |||| || || ||||| ||||| ||||||||||| || |||||||||||||||||||| ||||| || || | ||| ||| || ||||||| || ||
atgccatactccataatagacaattgttaatccccctccttgtatttc----tgttacaagataaactatgc----ctggcctgacagtttatggtttgttatggcagGTCTGTATCTTTGCCTATGGACAGACAGGTTCAGGAAAAACCTATACAATGATGGGTAGGCCGGATGCCCCCGATCTGAAGGGGTTGATACCACGTTCTC
upper sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA07G30580.1 (Glycine max), 3'ss of exon 10
gcttattggttgcaattgtctgat-tacctcttaatgttgtaaaatgcaatgaaatattttgtataattctcatttgattcttgttttgttctctttgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCAT
| || | |||| | || | |||| | |||| || || | | | | || || | | | |||| ||||| ||||||||||| ||||| ||||| || ||||||||||| |||||||| ||||| || || | ||| |||||| ||||||| || || |
gggggtttatcttt-ttgtttcatatttttcttgcttttgtttgtgttgatttgggtttaaatcatgtcttgacacagagggcaattgtttgttatggcagGTGTGCATCTTTGCATATGGACAGACGGGTTCAGGCAAAACCTATACTATGATGGGTAGGCCTGATGCGCCAGATCTGAAAGGATTGATACCACGCTCTT
upper sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA15G06880.1 (Glycine max), 3'ss of exon 11
--gcttattggttg-caattgtctgattacctcttaatgttgtaaaatgcaatgaaatattttgtataattct-catttgattcttgttttgttctctttgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCAT
|| | | | ||||||| | | ||||| | | | || | || | | | || | || | || || |||||| | | |||| || || ||||| ||||| |||||||| || || |||||||||||||||||||| ||||| || || | ||| ||| || ||||||| || ||
atactccataatagacaattgt-tagtcccctctccttatatttctgtgacaagataaactatgcgtggcctgacaaagggtttatggtttgttatg---gcagGTCTGTATCTTTGCTTATGGACAGACAGGCTCAGGCAAAACCTATACAATGATGGGTAGGCCGGATGCCCCCGATCTGAAGGGGTTGATACCACGTTCTC
upper sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT4G05190.1 (Arabidopsis thaliana), 3'ss of exon 11
-gcttattggttgcaattgtctgattacctcttaatgttgtaaaatgcaatgaaatattttgtataattctcatttgattcttgttttgttctctttgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCAT
| || ||| | | | | | |||| | | || | | || | | | | |||| | || | ||||||| || ||||| || ||||||||||||||||| ||||||||||| |||||||| ||||| ||| | | || ||||||| ||||| ||||| |||
gattcctttgttactgc-accaactcttgtttaaatgagacagacatcactttgactgattcttctgtcattgcatctttctcaaatctttgtggacacagGTTTGTATTTTTGCCTACGGTCAGACAGGTTCTGGCAAAACCTATACCATGATGGGCAGGCCTGAAACACCAGAACAGAAAGGACTGATCCCTCGATCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaatgaaatattttgtataattctcatttgattcttgttttgttctctttgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCAT
atttgat putative branch site (score: 5)
ttcttgttttgttctc CT-rich tract
aaatattttgtataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttattggttgcaattgtctgattacctcttaatgttgtaaaatgcaatgaaatattttgtataattctcatttgattcttgttttgttctctttgtagGTTTGCATATTTGCATATGGTCAGACAGGTTCTGGTAAAACCTATACAATGATGGGAAGGCCAGAAGCTTCTGATGAGAAAGGCCTGATACCTCGGTCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - tggttgc
- - - - - - - - tgtctga
- - - - - - - - - - - - - - - - - - - -taaaatg
- - - - - - - - - - - - - - - - - - - - - - - -aatgaaa