Sequence
atgc intronic sequence ATGC exonic sequence...ttgcatcttgttcttcaaaactgaaatggttctttgcatcttgttctttcaaaaaagatcatttcatttgaagttttattacattttctttggtttatagCCGGATATGGAATGAGACTTGGTTGGAGAAGTTTTTCTACAAACCGTGTAATTACGAATTATTCGTCAAACAAAACTTGAATATGGAAATGGCTATCACC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G41451.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G41451.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G28810.1 (Glycine max), 3'ss of exon 1
ttgcatcttgttcttcaaaactgaaatggttctttgcatcttgttctttcaaaaaagatcatttcatttgaagttttattacattttctttggtt--tatagCCGGATATGGAATGAGACTTGGTTGGAGAAGTTTTTCTACAAACCGTGTAATTACGAATTATTCGTCAAACAAAACTTGAATATGGAAATGGCTATCACC
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--atatgctaaatttcgcaacctctccaaaatgtttccaaatattttttgataggatgacttgttccttatttgcgtatttcttttttctttattatttcagCCGTATATGGAATGAGACATGGTTGGCAACCTTCTTCTACAAACCATGTAATTATGAGTTGTTTGTGAAGCAATCTTTGAACATGGAAATGGCTATTTGT
upper sequence: AT2G41451.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA19G31560.1 (Glycine max), 3'ss of exon 3
ttgcatcttgttcttcaaaactgaaatggttctttgcatcttgttctttcaaaaaagatcatttcatttgaagttttattacattttctttggtt--tatagCCGGATATGGAATGAGACTTGGTTGGAGAAGTTTTTCTACAAACCGTGTAATTACGAATTATTCGTCAAACAAAACTTGAATATGGAAATGGCTATCACC
|| | || | ||| | | | || || || | ||| | ||||| || || ||| || || || | ||||| |||||||||||||| ||||||| | || ||||||||||| |||||||| || || || || || ||| ||||| |||||||||||||| |
tttaaaattatatgctaaattttgcaacctctccaaaatgtt--tccaagtattttgataggatgatttgttccttatttgcatatttctttattacttcagCCGAATATGGAATGAGACATGGTTGGCAACCTTCTTCTACAAACCATGTAATTATGAGTTGTTTGTGAAGCAATCTTTGAACATGGAAATGGCTATTGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttcaaaaaagatcatttcatttgaagttttattacattttctttggtttatagCCGGATATGGAATGAGACTTGGTTGGAGAAGTTTTTCTACAAACCGTGTAATTACGAATTATTCGTCAAACAAAACTTGAATATGGAAATGGCTATCACC
cattttcttt CT-rich tract
atttcatttgaagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgcatcttgttcttcaaaactgaaatggttctttgcatcttgttctttcaaaaaagatcatttcatttgaagttttattacattttctttggtttatagCCGGATATGGAATGAGACTTGGTTGGAGAAGTTTTTCTACAAACCGTGTAATTACGAATTATTCGTCAAACAAAACTTGAATATGGAAATGGCTATCACC
- - - - - - - tcaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaga