Sequence
atgc intronic sequence ATGC exonic sequencegtgattgattttgatcactctcactagcttagtttatttggtgtataattaggcaattaggcaaagggattgtgttgcgtgttttagtaactttctgtagTTGTGGATGCAGGCATTCTCGTTGGATTTTAACCTTAGGTCTCACATGAAGACTCATTCACAAGAGAATTATCATATATGTCCTTACAGTGGGTGTGTGA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G06634.3 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G06634.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G13310.1 (Glycine max), 3'ss of exon 3
gtgattgattttgatcactctcactagcttagtttatttggtgtataattaggcaattaggcaaagggattgtgttgcgtgttttagtaactttctgtagTTGTGGATGCAGGCATTCTCGTTGGATTTTAACCTTAGGTCTCACATGAAGACTCATTCACAAGAGAATTATCATATATGTCCTTACAGTGGGTGTGTGA------------
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--cact-atttcagtctttcgctttgg---agtttggataatgtct--ttatgagtgtatgttt-gtaatcacaacatcttagtgaccaaatttgtcaatctgc---tgcagGCCTTCTCCCTGGATTTCAACTTAAGGTCTCACATGAAAACACATTCTCAAGAGAACTATCATATCTGCCCATATCCAGATTGTGGAAAGAGATATGCTC
upper sequence: AT4G06634.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G30150.1 (Glycine max), 3'ss of exon 4
gtgattgattttgatcactctcac-tagcttagtttatttggtgtataattaggcaattaggcaaagggattgtgttgcgtgttttagtaactttctgtagTTGTGGATGCAGGCATTCTCGTTGGATTTTAACCTTAGGTCTCACATGAAGACTCATTCACAAGAGAATTATCATATATGTCCTTACAGTGGGTGTGTGA------------
|| | | | ||| ||||| || ||| ||||| | | | || || | || | || | || || | || | || | || | | | || ||||||| ||||| ||||||| ||| | |||||||||||||| || ||||| |||||||| |||||||| || || || | |||| |
--tatccactatt-tcattctcaggtaagtta--ttattagtcttttgctttggaatttggataatgtctttatga-gtgtatgtttgcaatt----gcatctgc---tgcagGCCTTCTCCCTGGATTTCAACTTAAGGTCTCACATGAAAACACATTCCCAAGAGAACTATCATATCTGCCCATATCCAGATTGTGGAAAGAGATATGCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattaggcaattaggcaaagggattgtgttgcgtgttttagtaactttctgtagTTGTGGATGCAGGCATTCTCGTTGGATTTTAACCTTAGGTCTCACATGAAGACTCATTCACAAGAGAATTATCATATATGTCCTTACAGTGGGTGTGTGA
tagtaac putative branch site (score: 1)
ctttctgt CT-rich tract
ttttagtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgattgattttgatcactctcactagcttagtttatttggtgtataattaggcaattaggcaaagggattgtgttgcgtgttttagtaactttctgtagTTGTGGATGCAGGCATTCTCGTTGGATTTTAACCTTAGGTCTCACATGAAGACTCATTCACAAGAGAATTATCATATATGTCCTTACAGTGGGTGTGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA