Sequence
atgc intronic sequence ATGC exonic sequencegtaattcggaatcttattcacttatagcgccacacattctgattgatctagctagattaaatggtgaagcagGAAGAAGGATGGGTAGTGTGTAGAGCATTTAAGAAACGAACGACCATCCCAACAAAAAGGAGGCAACTTTGGGATCCGAACTGCTTATTCTACGACGACG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G66300.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G66300.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G24200.1 (Glycine max), 3'ss of exon 2
---------------------gtaattcggaatcttattcacttatagcgc-cacacattctgattgatctagctag------attaaatggtgaagcagGAAGAAGGATGGGTAGTGTGTAGAGCATTTAAGAAACGAACGACCAT---CCCAACAAAAAGGAGGCAACTTTGGGATCCGAACTGCTTATTCTACGACGACG
| ||| | || | || | || | | | | | || | | || | || |||||| ||||||||||| ||||| |||||||| |||||| |||| || | || ||| || | | || ||| ||| |||||||||| | | ||
cctagtcaagtcaaacataatacatttcaagagaatagagaaaccaagtccacaaaagtcttatcttagctttccaacatgtaatcgagtgtgtgtgcagGAGGAAGGATGGGTGGTGTGCAGAGCATTCAAGAAAAGAACAACTAACGGCCAAACGAAGACTATTGAAGGATGGCATCGAAACTGCTTATACGATGAAC--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacttatagcgccacacattctgattgatctagctagattaaatggtgaagcagGAAGAAGGATGGGTAGTGTGTAGAGCATTTAAGAAACGAACGACCATCCCAACAAAAAGGAGGCAACTTTGGGATCCGAACTGCTTATTCTACGACGACG
tagattaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcggaatcttattcacttatagcgccacacattctgattgatctagctagattaaatggtgaagcagGAAGAAGGATGGGTAGTGTGTAGAGCATTTAAGAAACGAACGACCATCCCAACAAAAAGGAGGCAACTTTGGGATCCGAACTGCTTATTCTACGACGACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG