Sequence
atgc intronic sequence ATGC exonic sequencegtaaaagaagttacaatgtttagtcagagagattacttcggtgtcagggtactcatactgtctctgcgttttagGGCTTTGGAAATGTGGGTTCTTGGGCAGCGAAGTTGATAAGTGACAAAGGTGGTAAGATTGTGGCGGTGAGTGATGTCACAGGAGCAATCAAGAACAATA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G03910.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G07940.1 (Glycine max), 3'ss of exon 6
---------------gtaaaagaagttacaatgtttagtcagaga----gattacttcggtgt-----cagggtactcatactgtc-tctgcgt-tttagGGCTTTGGAAATGTGGGTTCTTGGGCAGCGAAGTTGATAAGTGACAAAGGTGGTAAGATTGTGGCGGTGAGTGATGTCACAGGAGCAATCAAGAACAATA
| ||| | | | | | | | | | ||| | || | | || | | | || |||| | || || || |||| |||||||||||||| |||||||| || || ||||| ||||| |||||||| || |||| || |||||||| | || || || |||||||| | |
gtaaaaattctccaagaaaagaagatcatcagttcatgcctaatattttgatgaatttgagataaacgcatgcaattaatcatgtcgtgtgtgtcttcagGGTTTTGGAAATGTGGGGTCTTGGGCTGCCAAATTGATCAGTGAGAAAGGTGGAAAAGTTGTTGCTGTGAGTGACATAACTGGGGCCATCAAGAATAGCA
upper sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S62_236V6.1 (Physcomitrella patens), 3'ss of exon 6
---------------gtaaaagaagttacaatgtttagtcagagagattacttcggtgtcagggta------ctcat-actgtct-ctgcgtttt---agGGCTTTGGAAATGTGGGTTCTTGGGCAGCGAAGTTGATAAGTGACAAAGGTGGTAAGATTGTGGCGGTGAGTGATGTCACAGGAGCAATCAAGAACAATA
| | | | | | ||| | | ||| | |||| || |||| | | ||| || | | | |||||||||| |||||||||||||||||| |||| | || || || ||||| || ||| ||| || |||||||| || ||||| |||||||||||
gttcgcaattgcaccttcatggctttgatgctcgccagtatggtatcttattcgtctgtctaagtgaattttttcatgattttctattgtgatatgacagGGCTTTGGGAATGTGGGTTCTTGGGCATCGAAACTTATCCACGAAAAGGGTGGAAAAATTAAGGCTGTTAGTGATGTTACTGGAGCCATCAAGAACAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagtcagagagattacttcggtgtcagggtactcatactgtctctgcgttttagGGCTTTGGAAATGTGGGTTCTTGGGCAGCGAAGTTGATAAGTGACAAAGGTGGTAAGATTGTGGCGGTGAGTGATGTCACAGGAGCAATCAAGAACAATA
ctgtctct CT-rich tract
attactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaagaagttacaatgtttagtcagagagattacttcggtgtcagggtactcatactgtctctgcgttttagGGCTTTGGAAATGTGGGTTCTTGGGCAGCGAAGTTGATAAGTGACAAAGGTGGTAAGATTGTGGCGGTGAGTGATGTCACAGGAGCAATCAAGAACAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC