Sequence
atgc intronic sequence ATGC exonic sequencegttagtttctggttttacacattggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G18150.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
gttagtttctggttttacac--attggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgtttt-cagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
| | | | ||| | ||| || || | | | || || | | | | | ||||| ||||| |||| | || || ||||||||| | || || ||||| |||||||| |||||||| ||||| ||||||| ||||||||||| || || |||||||| || ||
---gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgcttgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA
upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 2
gttagtttctggttttaca-cattggtctctttcgatcct--catgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
|| || | | || | | | |||| | ||| |||| | | ||||| || | | | || | || |||| |||||||||||||| |||||||| || || |||||||| ||||| |||||||||||| | || || |||||||||||||| ||||| ||||| |||||
-----------gtattgtatccttattatgacaaggtccttccttgacttttttagatagtgatattaaactagtatatcatttttc--ttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 2
gttagtttctggttttacacattggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
|| || || | | | | ||||| ||||| ||||| || | | | || | || |||| || ||||||||||| |||||||| || || || ||||| ||||| |||||||||||| | || || |||||||||||||| ||||| ||||| |||||
-----------gtattgcatccttattataaccaggtccttgacttttttagataga-gatattaaactagtgtatcatttttc--ttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G11470.1 (Glycine max), 3'ss of exon 2
gttagtttctggttttacacattggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
|| | | || |||| ||| | ||| | | ||| | || | | || | | || |||| |||||||||||||| || ||||| || || || ||||||||||||||||||||||| | || | ||||||||||| || ||||| ||||| |||||
------------------gtatccttgtaattaagtcct--tgactgttgctgatagtgataataaactaaaataacatttttt-cttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTGATTGCAAGCTAAAATTATGTGATTTTGGACTTGCTCGAGTTTCATTTAA
upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 2
gttagtttctggttttacacattggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
|| | | || |||| ||| | ||| | ||||| || | || ||| || |||| |||||||||||||| || ||||| || || || ||||||||||||||| |||||||| | || || |||||||| || || ||||| ||||| |||||
------------------gtatccttgtaattaagtcct--tgactgttgcagatagtgatattaaactaa--aataacattcttcttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTAATTGCAAACTAAAAATATGTGATTTCGGACTTGCTCGAGTTTCATTTAA
upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv01s0011g04920.t01 (Vitis vinifera), 3'ss of exon 2
gttagtttctggttttacacattggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgtttt-cagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
||| | | |||| | | || | | ||| || |||| ||| || || | | || | | ||| | |||| |||| |||||||||||| | ||||| || || || ||||| || |||||||| || |||||| ||||||| |||||||||||||| |||||||| || |||||
gttggacctttgtttaaaattgtg-ccattatcgtatttc----ttttggttctatattctcaatgaccaataatattgtctttattttgcagCAAATGTGTTTCATAGAGATTTAAAGCCAAAAAACATCCTTGCTAATGCAGACTGCAAACTGAAGATTTGTGATTTTGGGCTTGCTCGCGTGTCATTTAA
upper sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
----gttagtttctggttttacacattggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
|| |||| | | | | | || | | | || | || | | || | ||| ||| || |||| | |||| |||||||||||||| |||||||| || || || ||||| |||||||| || ||||| |||||||| |||||||||||||| ||||| || || || ||
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttct-----tccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcatgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
ttctctgttttc CT-rich tract
atttttgttatagata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtttctggttttacacattggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA