Sequence
atgc intronic sequence ATGC exonic sequencegtcatctgtgcccattatttcccagttttatgacaaatatcagttccacgtgcattattatgtcatagattttaatgcttacctctctttgtgatgaatcttctgaagtttattttgaaattttgtttaggctgtttcagGCTGAGCTTGCTAGAGAAATGGGTTACACTGCTGCTAGGTTTGGGCATGTTATGTTCCCTGAGAATGTATATGAACCTGCCTTGAAGTGCGCTGAGCTGT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G57590.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G57590.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA13G01170.1 (Glycine max), 3'ss of exon 4
gtcatctgtgcccattatttcccagttttatgacaaatatcagttccacgtgcattattatgtcatagattttaatgcttacctctctttgtgatgaatcttctgaagtttattt--tgaaatttt---gtttaggctgtttcagGCTGAGCTTGCTAGAGAAATGGGTTACACTGCTGCTAGGTTTGGGCATGTTATGTTCCCTGAGAATGTATATGAACCTGCCTTGAAGTGCGCTGAGCTGT
||| || | || |||| || | || | || || || || || | || || ||| || ||| || |||||| |||||| |||| |||||||| || ||||| || ||||||| || ||||||||||| ||||||||||||||||| |||| || |||||||| || |||||||| |
-----------------------------------gataccaactatgtttggcatatt------taaactt----ggttgccccttcatgatatcatctctccagttttcctttaatgcaatctttccatttaggtgatttcagACTGAACTTGCTAGGGAGATGGGATATGCTGCTGCAAGATTTGGGCATGTAATGTTCCCTGAGAATGTTCATGAGCCAGCCTTGAATTGTGCTGAGCTTT
upper sequence: AT5G57590.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 4
gtcatctgtgcccattatttcccagttttatgacaaatatcagttccacgtgcattattatg-tcatagattttaatgcttacctctctttgtgatgaatcttctgaagtttattttgaaattttgtttaggctgtttcagGCTGAGCTTGCTAGAGAAATGGGTTACACTGCTGCTAGGTTTGGGCATGTTATGTTCCCTGAGAATGTATATGAACCTGCCTTGAAGTGCGCTGAGCTGT
| || | | | | |||| ||||||| | | | | ||| || || | || | | || |||||||||| ||||||| ||||||||| ||||| ||||||| ||||||| || ||||||||||| ||||| ||||||||||| ||||| || || || | || || || || |
--------------------------------------gttgagtctttgcataatgccagaatcattgattttatttgcttcaaaagtgtgttggtaagtttgtc---ttaactgtggttatttgtttaggtggtttcagATTGAGCTTGCAAGAGATGTGGGTTATGCTGCTGCAAGATTTGGGCATGTAATGTTTCCTGAGAATGTTTATGAGCCAGCTTTAGAATGTGCAGAACTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttgtgatgaatcttctgaagtttattttgaaattttgtttaggctgtttcagGCTGAGCTTGCTAGAGAAATGGGTTACACTGCTGCTAGGTTTGGGCATGTTATGTTCCCTGAGAATGTATATGAACCTGCCTTGAAGTGCGCTGAGCTGT
ctgtttc CT-rich tract
aagtttattttgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatctgtgcccattatttcccagttttatgacaaatatcagttccacgtgcattattatgtcatagattttaatgcttacctctctttgtgatgaatcttctgaagtttattttgaaattttgtttaggctgtttcagGCTGAGCTTGCTAGAGAAATGGGTTACACTGCTGCTAGGTTTGGGCATGTTATGTTCCCTGAGAATGTATATGAACCTGCCTTGAAGTGCGCTGAGCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG