Sequence
atgc intronic sequence ATGC exonic sequencegtaactctcaaaacaaatcttctcattactgtgtttttatttattttacttttctgtccaacgaatttatttttcttatatgcaaaatcgaataaattttagGTGTAGAGGTTTCACCTTTGTGCTCATACGCCGGAGAAAATCTTGAAGCTATTTGTCGAGGAAGAACGTTTCATGCACCTTGTGAAATTTCCCTCTAATG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G31070.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G31070.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA05G26240.1 (Glycine max), 3'ss of exon 14
----------------------------------------------------------------------------------------gtaactctcaaaacaaatcttctcattactgtgtttttatttattttacttttctgtccaacgaatttatttttcttatatgcaaaatc--gaataaattttagGTGTAGAGGTTTCACCTTTGTGCTCATACGCCGGAGAAAATCTTGAAGCTATTTGTCGAGGAAGAACGTTTCATGCACCTTGTGAAATTTCCCTCTAATG
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gtaggttatttactctttatttccaaggagaagaaatatagttgcggccggactcttacccagacatatgtatacacacatggagagaatatgtgacataaatagatggagagatagtatattttttgttagaaaaatgatggtcttatctaactctttttcttttcatgaaatgtccctgcccttattcagGTGTTGAAGTGTCACCACTCTGTTCGTATGCTGGTGAAAACCTGGAACCTATATGTCGAGGAAGAACATTTCATGCACCTTGTGAGATCTCATTTTAGTT
upper sequence: AT1G31070.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA08G09170.2 (Glycine max), 3'ss of exon 15
-----------------------------------------------------------------------------------------gtaactctcaaaacaaatcttctcattactgtgtttttatttatt-------ttacttttctgtccaacgaatttatttttcttatatgcaaaatcgaataaat-tttagGTGTAGAGGTTTCACCTTTGTGCTCATACGCCGGAGAAAATCTTGAAGCTATTTGTCGAGGAAGAACGTTTCATGCACCTTGTGAAATTTCCCTCTAATG
| | | | | | || | | || | || ||| || | | | | | || ||| || |||| || |||| || || || |||||| || || ||||| | || || || || || ||||| || ||| | || |||||||||||||| ||||||||||||||||| || || |||| |
gtaagttatttactctttttttttttcatggagaagaagtataattgcggctggactcttgcacagacatatgtacacacacacatggagagaatgtgacagaaagagatggagagatagtataattttttgttagaaaagtgattgtcttatctaactc-ttccttttctttttatggaatgtcccgccctcattcagGTGTTGAAGTGTCACCACTCTGTTCGTATGCTGGTGAAAACCTGGAACCAATATGTCGAGGAAGAACATTTCATGCACCTTGTGAGATCTCGTTCTAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttttctgtccaacgaatttatttttcttatatgcaaaatcgaataaattttagGTGTAGAGGTTTCACCTTTGTGCTCATACGCCGGAGAAAATCTTGAAGCTATTTGTCGAGGAAGAACGTTTCATGCACCTTGTGAAATTTCCCTCTAATG
aatttatttttcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactctcaaaacaaatcttctcattactgtgtttttatttattttacttttctgtccaacgaatttatttttcttatatgcaaaatcgaataaattttagGTGTAGAGGTTTCACCTTTGTGCTCATACGCCGGAGAAAATCTTGAAGCTATTTGTCGAGGAAGAACGTTTCATGCACCTTGTGAAATTTCCCTCTAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC