Sequence
atgc intronic sequence ATGC exonic sequencegttttcttataatctctcatgttttcttcttcatttcttccatctgggcagtcgttttttttgtctgattcgtcaacgagcgctagggttactcttgaaatttgctaaagttgagaacttttctcaaattgtgttgagtatgtgaatttgggaacttggttcagtatctgaattagtggtttcttttgtagAAAAGAGAATTGTTTCAGGATCTGGCGCCTTTGTTGTGGAACTCTTTTGGTACCATTGCTGCCTTGTTACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G20800.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G20800.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA14G02480.1 (Glycine max), 3'ss of exon 1
gttttcttataatctctcatgttttcttcttcatttcttccatctgggcagtcgttttttttgtctgattcgtcaacgagcgctagggttactcttgaaatttgctaaagttgagaacttttctcaaattgtgttgagtatgtgaatttgggaacttggttcagtatctgaattagtggtttcttttgtagAAAAGAGAATTGTTTCAGGATCTGGCGCCTTTGTTGTGGAACTCTTTTGGTACCATTGCTGCCTTGTTACAG
|| | || || | | | | | | || | | | | | || || ||| | || | | || || || || | | | || | ||| | | || ||||| ||||| || ||||||||||| || || || |||||||| |||||||||||||| | || | ||||||
--------------------------------------------------gtactacttaacttccgtcgtttttccactctcctgcgtcgttttaatagtcc-----aattaagtactcatg-catgtattcatgcgt-cgtcgtttcaagg--ctcacacggttaatatttta------tatattttagAAGAGAGAGTTATTTCAGGATCTTGCTCCATTATTGTGGAATTCTTTTGGTACCATGTCAGCACTTTTACAG
upper sequence: AT3G20800.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 3
gttttcttataatctctcatgttttcttcttcatttcttccatctgggcagtcgttttttttgtctgattcgtcaacgagcgctagggttactcttgaaatttgctaaagttgagaacttttctcaaattgtgttgagtatgtgaatttgggaacttggttcagtatctgaattagtggtttcttttgtagAAAAGAGAATTGTTTCAGGATCTGGCGCCTTTGTTGTGGAACTCTTTTGGTACCATTGCTGCCTTGTTACAG
||||| | |||||| || || | | ||| || | ||||| |||||||| ||||| ||| |||| || || |||||||| ||||||||||| |||||||| | || |||
-----------------------------------------------------------------------------------------------------------------------------------------gtatgc---ctaataaacttgttttggtttttt--------gttctttctttagAAGAGAGAATTATTTCAAGATTTGGCTCCATTATTGTGGAATTCTTTTGGTACTATTGCTGCACTATTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtatgtgaatttgggaacttggttcagtatctgaattagtggtttcttttgtagAAAAGAGAATTGTTTCAGGATCTGGCGCCTTTGTTGTGGAACTCTTTTGGTACCATTGCTGCCTTGTTACAG
tttcttttgt CT-rich tract
tttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttcttataatctctcatgttttcttcttcatttcttccatctgggcagtcgttttttttgtctgattcgtcaacgagcgctagggttactcttgaaatttgctaaagttgagaacttttctcaaattgtgttgagtatgtgaatttgggaacttggttcagtatctgaattagtggtttcttttgtagAAAAGAGAATTGTTTCAGGATCTGGCGCCTTTGTTGTGGAACTCTTTTGGTACCATTGCTGCCTTGTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC