Sequence
atgc intronic sequence ATGC exonic sequencegtacagaacattatcatctagagcttgctatcttgggacatatcttcatatgagttttatcatcaaaagtgtttgtttttgaacttttagGTATCAATGTTCAAGAAGAATTTTAAACATCTTCCTAGAGAAGTTTACTATGGAAACTATAAAGAGGCAACTCGTGGCAATCCAAACTATTTTCTTACCT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G41451.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G41451.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA03G28810.1 (Glycine max), 3'ss of exon 4
--------gtacagaacattatcatctagagcttgctatcttgggacatatcttcatatgagttttatcatcaaaagtgtttg--tttttgaacttttagGTATCAATGTTCAAGAAGAATTTTAAACATCTTCCTAGAGAAGTTTACTATGGAAACTATAAAGAGGCAACTCGTGGCAATCCAAACTATTTTCTTACCT
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ttttgtttatggtgttgattgttgttctttgttccaaatttttttgtcctttttgaaacctagtatatttattgacatgtttaactcttttttatcatagGTTTCAATGTTCAAGAAGAACTATGACCATCTTCCCAAGGATGTATATTTTGGAAATTACAAAGAAGCAACTCGTGGCAATCCAAACTATTTTCTTACTT
upper sequence: AT2G41451.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA19G31560.1 (Glycine max), 3'ss of exon 6
----------gtacagaacattatcatctagagcttgctatcttgggacatatcttcatatgagttttatcatcaaaagtgtttgtttttgaacttt----tagGTATCAATGTTCAAGAAGAATTTTAAACATCTTCCTAGAGAAGTTTACTATGGAAACTATAAAGAGGCAACTCGTGGCAATCCAAACTATTTTCTTACCT
|| || || | | || | | | | | || | | | | ||| | ||||| || || | ||||| ||||||||||||||||| | | | |||||||||| || || || | |||||| || ||||| ||||||||||| ||||| |||||||| ||||| |
tttgttaattgtgttgattgttgctctttg----ttccaactctttcatcctttttgaaaccaagtatatttattgacatgtttaacttgcaatgtcatcatagGTTTCAATGTTCAAGAAGAACTATGACCATCTTCCTAAGGATGTATATTTTGGAAATTACAAAGAAGCAACTCGTGGAAATCCTAACTATTTCCTTACTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggacatatcttcatatgagttttatcatcaaaagtgtttgtttttgaacttttagGTATCAATGTTCAAGAAGAATTTTAAACATCTTCCTAGAGAAGTTTACTATGGAAACTATAAAGAGGCAACTCGTGGCAATCCAAACTATTTTCTTACCT
ctttt CT-rich tract
ttttatcatcaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacagaacattatcatctagagcttgctatcttgggacatatcttcatatgagttttatcatcaaaagtgtttgtttttgaacttttagGTATCAATGTTCAAGAAGAATTTTAAACATCTTCCTAGAGAAGTTTACTATGGAAACTATAAAGAGGCAACTCGTGGCAATCCAAACTATTTTCTTACCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG