Sequence
atgc intronic sequence ATGC exonic sequencegtaatggttttttttccctttctttctctgttgatttgcatgtttgaactttgaaatgttgtagcttttgttcataaaggctttttccaattgcagAGACTTGCAAGGTAATAAACTAGCAGGTCAAATTCCAGATGAGATTGGAAACTGTGCTTCTCTTGTTTATCT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G62230.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G62230.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G27950.1 (Glycine max), 3'ss of exon 2
----gtaatggttttttttccctttctttctctgttgatttgcatgtttgaactttgaaatgttgtagcttttgttcata---aaggctttttccaattgcagAGACTTGCAAGGTAATAAACTAGCAGGTCAAATTCCAGATGAGATTGGAAACTGTGCTTCTCTTGTTTATCT
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gtatgtattatatcttttgatttgtaattatttgatcatacaccttttt---ctcttagctcttatttttttaacctgaattttgcatttcttgcaatgacagAGACCTGCAGGGAAATAAACTAACTGGTCAAATTCCAGATGAAATTGGAAACTGTGCTGAACTTATTTATCT
upper sequence: AT5G62230.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G32830.1 (Glycine max), 3'ss of exon 3
gtaatggttttttttccctttctttctctgttgatttgcatgtttgaactttgaaatgttgtagcttttgttcataaaggcttt-ttccaattgcagAGACTTGCAAGGTAATAAACTAGCAGGTCAAATTCCAGATGAGATTGGAAACTGTGCTTCTCTTGTTTATCT
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------gtatgtattatatcttttggtttatttgatcgtacactttttctcttggctcttatttttatatttaacctgaattttgcttttctgacagAGACCTGCAGGGAAATAAACTAACTGGTCAAATTCCAGATGAAATTGGAAACTGTGCTGAGCTTATTTATCT
upper sequence: AT5G62230.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G38730.1 (Glycine max), 3'ss of exon 3
---------------------gtaatggttttttttccctttctttc----tctgttgatttgcatg--tttgaactttgaaat--gttgtagcttttgttcataaaggctttttccaattgcagAGACTTGCAAGGTAATAAACTAGCAGGTCAAATTCCAGATGAGATTGGAAACTGTGCTTCTCTTGTTTATCT
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gtatgtttgtttggtttcaaagagttgaaccttttaacatttggtttcgaatgtgcatatctgtaaagttttaaactttgattttagcttaagagtctgcttttcttt-ttttctgcaatcacagAGACTTGCAAGGGAATAAACTAACTGGGCAAATCCCTGATGAAATTGGAAACTGTGCAGCACTTGTTCATCT
upper sequence: AT5G62230.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G29010.1 (Glycine max), 3'ss of exon 2
------------------gtaatggttttttttccctttctttctctgttgatttgcatgtttgaactttgaaatgttgtagc-ttttgttcataaaggctttttccaattgcagAGACTTGCAAGGTAATAAACTAGCAGGTCAAATTCCAGATGAGATTGGAAACTGTGCTTCTCTTGTTTATCT
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gtatgtttgtttggtttcatagagttgaacgtttaacattctgtttaatccacatatctcttttagttttacactttgattttaccttaagAATCTGCATTTTTTTGGCATTCAGAGACTTGCAAGGGAGTAAACTAACCGGGCAAATCCCAGATGAAATTGGAAACTGTGCAGCACTCGTTCATCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgaactttgaaatgttgtagcttttgttcataaaggctttttccaattgcagAGACTTGCAAGGTAATAAACTAGCAGGTCAAATTCCAGATGAGATTGGAAACTGTGCTTCTCTTGTTTATCT
ctttttcc CT-rich tract
tttgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatggttttttttccctttctttctctgttgatttgcatgtttgaactttgaaatgttgtagcttttgttcataaaggctttttccaattgcagAGACTTGCAAGGTAATAAACTAGCAGGTCAAATTCCAGATGAGATTGGAAACTGTGCTTCTCTTGTTTATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG