Sequence
atgc intronic sequence ATGC exonic sequencegtatgcctaataaacttgttttggttttttgttctttctttagAAGAGAGAATTATTTCAAGATTTGGCTCCATTATTGTGGAATTCTTTTGGTACTATTGCTGCACTATTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G02480.1 (Glycine max), 3'ss of exon 1
---------------------------------------------------------------------------------gtatgcctaataaacttgttttggtt--ttttgttctttctttagAAGAGAGAATTATTTCAAGATTTGGCTCCATTATTGTGGAATTCTTTTGGTACTATTGCTGCACTATTGCAG
|| | | || | |||| | || | | ||||||||||||| |||||||| ||| | ||||||||||||||||||||||||||||| || | ||||| || |||
gtactacttaacttccgtcgtttttccactctcctgcgtcgttttaatagtccaattaagtactcatgcatgtattcatgcgtcgtcgtttcaaggctcacacggttaatattttatatattttagAAGAGAGAGTTATTTCAGGATCTTGCTCCATTATTGTGGAATTCTTTTGGTACCATGTCAGCACTTTTACAG
upper sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G43220.1 (Glycine max), 3'ss of exon 1
-------------------------------------------------------gtatgcctaataaacttgttttggttttttgttctttc----tttagAAGAGAGAATTATTTCAAGATTTGGCTCCATTATTGTGGAATTCTTTTGGTACTATTGCTGCACTATTGCAG
| || || || ||| || || |||| ||| |||||||||| || ||||||||||| | |||||||| | ||||||||||||||||| ||||||||||| ||||||
cacgatttggcttgttttttcttgtaaatgtttggtagtgctgatgtgcttatagaggtatctcatcaa--tgtctttcttccatgtttttttgcattttagAAGAGGGAGCTATTTCAAGATCTTGCTCCATTGCTATGGAATTCTTTTGGTACAATTGCTGCACTTTTGCAG
upper sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G10400.1 (Glycine max), 3'ss of exon 1
--------------------------------------------------------gtatgcctaataaacttgttttggttttttgttcttt---ctttagAAGAGAGAATTATTTCAAGATTTGGCTCCATTATTGTGGAATTCTTTTGGTACTATTGCTGCACTATTGCAG
|| || || ||| || || |||| ||| |||||||||| || ||||||||||| | ||||| || | ||||||||||||||||||||||||||||| ||||||
ttggcttcttctttcttgtaaatgtttggtgttgctgatttatgatgcagtcatagaggcatctcatcaa--tgtctttcttccatgttttttgcattttagAAGAGGGAGCTATTTCAAGATCTTGCTCCGTTGCTATGGAATTCTTTTGGTACTATTGCTGCACTTTTGCAG
upper sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G46250.1 (Glycine max), 3'ss of exon 1
--------------------------------------------------------gtatgcctaataaact-tgttttggttttttgttctttctttagAAGAGAGAATTATTTCAAGATTTGGCTCCATTATTGTGGAATTCTTTTGGTACTATTGCTGCACTATTGCAG
| | | | || | | || |||||| | | |||||||||| || |||||||| ||| | ||||| ||||||||||||||| |||| || || || ||||| || |||
taattgttttcgctctctatttcatgcgtcgtcgtttcaaggctcacacggttaatatttttttccttctctctctcttttttttttatatatgttttagAAGAGGGAGTTATTTCAGGATCTTGCTCCGTTATTGTGGAATTCTCTTGGCACCATGGCAGCACTTTTACAG
upper sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G20800.1 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------------------------------------------------------------------------------------------------------------------gtatgc---ctaataaacttgttttggtttttt--------gttctttctttagAAGAGAGAATTATTTCAAGATTTGGCTCCATTATTGTGGAATTCTTTTGGTACTATTGCTGCACTATTGCAG
||||| | |||||| || || | | ||| || | ||||| |||||||| ||||| ||| |||| || || |||||||| ||||||||||| |||||||| | || |||
gttttcttataatctctcatgttttcttcttcatttcttccatctgggcagtcgttttttttgtctgattcgtcaacgagcgctagggttactcttgaaatttgctaaagttgagaacttttctcaaattgtgttgagtatgtgaatttgggaacttggttcagtatctgaattagtggtttcttttgtagAAAAGAGAATTGTTTCAGGATCTGGCGCCTTTGTTGTGGAACTCTTTTGGTACCATTGCTGCCTTGTTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatgcctaataaacttgttttggttttttgttctttctttagAAGAGAGAATTATTTCAAGATTTGGCTCCATTATTGTGGAATTCTTTTGGTACTATTGCTGCACTATTGCAG
gcctaat putative branch site (score: 3)
cttgttttggtttttt putative PPT
taataaacttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcctaataaacttgttttggttttttgttctttctttagAAGAGAGAATTATTTCAAGATTTGGCTCCATTATTGTGGAATTCTTTTGGTACTATTGCTGCACTATTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC