Sequence
atgc intronic sequence ATGC exonic sequencegtttgtttatatgttcaacgatgagtgtttccacattcttttttgtcccaagctggttatatgacatctgcttttctttatgtctgtctagGTTTGTAAACAAGATATGATTGAGTACTACGATATCTCTGGATGTTATATTCTACGGCCATGGTCAATGGCCATTTGGGAGATTATGCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G62120.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G62120.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA19G40930.4 (Glycine max), 3'ss of exon 3
----------------------------------------------------------------gtttgtttatatgttcaacgatgagtgtttc----cacattcttttttgtcccaagctggttata--tgacatctgcttttctttatgtctgtctagGTTTGTAAACA-AGATATGATTGAGTACTACGATATCTCTGGATGTTATATTCTACGGCCATGGTCAATGGCCATTTGGGAGATTATGCAA
| | ||| || | | ||| | |||||| | ||| || | ||| | |||| | | ||| ||| | | | |||| || || |||||||||||||| ||||| || || || |||||||| |||| ||||||||||| || |||||||| ||||||
gtattctgagtcgtttaatggtttatgcttgttgttttgacctgatctgtgttcggtcaaagttgctcgttcatccttgaactgat-attgtttcactgtatgacaatttcagtagtgtgtgtgttttggttgactttggatttggattaatttggcagGTGGTTGTTAATGCGGAAATGATTGAGTACTATGATATTTCCGGTTGCTATATTCTGAGGCCTTGGTCAATGGCAATATGGGAGATCATGCAA
upper sequence: AT3G62120.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA03G38340.1 (Glycine max), 3'ss of exon 3
------------------------------------------------------------gtttgtttatatgttcaacgatgag--tgtttccacattc-----ttttttgtcccaagctggttata--tgacatctgcttttctttatgtctgtctagGT-TTGTAAACAA-GATATGATTGAGTACTACGATATCTCTGGATGTTATATTCTACGGCCATGGTCAATGGCCATTTGGGAGATTATGCAA
||| | | || | ||| |||||| | |||| || | | ||| | |||| | | ||| ||| |||| | | | |||| || || |||||||| ||||| ||||| || || || |||||||| |||| ||||||||||| || |||||||| ||||||
gtattatgagccgtttagtggtttatgcttgccttttttacctgatctgtgttcggtcaaagttgctcgttcgtcctgatctgatcttgtttcactgtgtgacaattttgagtacggtgtgtgttttggttgactttgggtttggatta-atctggcagGTTGTTGTTAATGCCGAAATGATTGAATACTATGATATTTCCGGTTGCTATATTCTGAGGCCTTGGTCAATGGCAATATGGGAGATCATGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttttttgtcccaagctggttatatgacatctgcttttctttatgtctgtctagGTTTGTAAACAAGATATGATTGAGTACTACGATATCTCTGGATGTTATATTCTACGGCCATGGTCAATGGCCATTTGGGAGATTATGCAA
cttttctttatgtct CT-rich tract
ttttctttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtttatatgttcaacgatgagtgtttccacattcttttttgtcccaagctggttatatgacatctgcttttctttatgtctgtctagGTTTGTAAACAAGATATGATTGAGTACTACGATATCTCTGGATGTTATATTCTACGGCCATGGTCAATGGCCATTTGGGAGATTATGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT