Sequence
atgc intronic sequence ATGC exonic sequencegtgagaggcttgggattttccaccttcaactttgccccgcctatagggattttctgataccgtgtattttttttttccttttttacagACAAAACTTAAAACTGCCGTCCAATTGCAAGATCTATTGGATGCCACAAGAATGTTAATTCCTCGTGCAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G15070.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 11
----------------gtgagaggcttgggattttccaccttcaactttgccccgcctatagggatttt-ctgataccgtgtattttttttttccttt-tttacagACAAAACTTAAAACTGCCGTCCAATTGCAAGATCTATTGGATGCCACAAGAATGTTAATTCCTCGTGCAAG
||| | | |||| || ||| | || || || |||| | | || | ||| | || ||| ||| |||||||||||||||| ||| || ||| | |||||||| || ||||||||| | ||| || |||||||| | ||
gtgatattattttctagtgctaa-tgtaatatttgtcaacttttatttgatccactggattttttttttacctcttttgtttgatttaatgatcttttgtttgcagACAAAACTTAAAAGTGCTGTTCAACTTCAAGATCTGTTAGATGCCACACGCATGCTAGTTCCTCGTACCAG
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 11
---------gtgagaggcttgggattttccaccttcaactttgccccgcctatagggattttctgataccgtgt---attttttttttccttttttacagACAAAACTTAAAACTGCCGTCCAATTGCAAGATCTATTGGATGCCACAAGAATGTTAATTCCTCGTGCAAG
| | | | | | | || | ||| ||| | | || | | ||| || | || | | ||| |||||||||||||||| ||| || || |||||||||| || ||||||||||| ||| | | ||||| | ||
agACAAAACTTAAAAATCCTTCAGTAATGTTTATTAATTTTTATTTGAGCTACTGAATTCTTAATCTTCTGTGATTGATCTATTGGTCTTGTGTTTGCAGACAAAACTTAAAAGTGCTGTTCAGCTGCAAGATCTGTTAGATGCCACAAGGATGCTGGTGCCTCGCACTAG
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 13
----------------gtgagaggcttgggattttccaccttcaactttgccccgcctatagggattttctgataccgtgtatttttttt-----ttccttttttacagACAAAACTTAAAACTGCCGTCCAATTGCAAGATCTATTGGATGCCACAAGAATGTTAATTCCTCGTGCAAG
||| | | || || || || | | | | | |||| | | | | | || ||| | || ||| |||||||||||||||| ||| || ||| | |||||| | || ||||||||| ||||| || |||||||| | ||
gtgatattattttctagtgtttgtgtaatatttgtctacttttatttgatcttctggattttttttttttttacctcttttgcttgatttaatgatcttttgtttgcagACAAAACTTAAAAGTGCTGTTCAACTTCAAGATTTGTTAGATGCCACACGAATGCTAGTTCCTCGTACCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gccccgcctatagggattttctgataccgtgtattttttttttccttttttacagACAAAACTTAAAACTGCCGTCCAATTGCAAGATCTATTGGATGCCACAAGAATGTTAATTCCTCGTGCAAG
ttctgat putative branch site (score: 3)
taccgtgtattttttt CT-rich tract
tgtattttttttttcc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaggcttgggattttccaccttcaactttgccccgcctatagggattttctgataccgtgtattttttttttccttttttacagACAAAACTTAAAACTGCCGTCCAATTGCAAGATCTATTGGATGCCACAAGAATGTTAATTCCTCGTGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA