Sequence
atgc intronic sequence ATGC exonic sequencegtaaatgtgaatttgattttggaattcactaattaatctttctgatgtttcttattacatatatagatcaaatccaacacgtaaaagtgcatatcttattgtttgcttttctcctcagGTTCCACGTGGAGCTGCAGCTCCGGTTTGTTTCAAGACTGGACTTGCCCATCTTGAACAAAACCAGCTTCCAGATGCACTGTCTTGCTTTGACGAAGCAT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G50590.1 |
intron # | 24 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G50590.1 (Arabidopsis thaliana), 3'ss of exon 24
lower sequence: GLYMA05G10590.1 (Glycine max), 3'ss of exon 23
gtaaatgtgaatttgattttggaattcactaattaatctttctgatgtttcttattacatatatagatcaaatccaacacgtaaaagtgcatatcttattgtttgcttttctcctcagGTTCCACGTGGAGCTGCAGCTCCGGTTTGTTTCAAGACTGGACTTGCCCATCTTGAACAAAACCAGCTTCCAGATGCACTGTCTTGCTTTGACGAAGCAT
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------------ctgttaatgacaactaggaaattggctttttact-taacctgctgggcatatatattgt-ttcaccatt----gttcccaatctcatctcatggatcgtatgttagGTTCCCCGTGGAGCTGCTGCTTCAGTATGTTTCAAGACTGGACTTGCTCACCTTGAGCAAAATAATCTTTCAGATGCATTGTCTTGCTTTGATGAAGCTT
upper sequence: AT3G50590.1 (Arabidopsis thaliana), 3'ss of exon 24
lower sequence: GLYMA17G20310.1 (Glycine max), 3'ss of exon 24
gtaaatgtgaatttgattttggaattcactaattaatctttctgatgtttcttattacatatatagatcaaatccaacacgtaaaagtgcatatcttattgtttgcttttctcctcagGTTCCACGTGGAGCTGCAGCTCCGGTTTGTTTCAAGACTGGACTTGCCCATCTTGAACAAAACCAGCTTCCAGATGCACTGTCTTGCTTTGACGAAGCAT
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-----------gataatgacacatctaggaaattagcttttt--acttaacctgctgggcatatatattgt-ttcaccatt----gtttccaatctcatgtcatggattttatgacagGTTCCCCGTGGAGCTCCTGCTTCTGTATGTTTCAAGACTGGACTTGCTCACCTTGAGCAAAATAATCTTTCAGATGCATTGTCTTGCTTTGATGAAGCTT
upper sequence: AT3G50590.1 (Arabidopsis thaliana), 3'ss of exon 24
lower sequence: GLYMA01G39110.1 (Glycine max), 3'ss of exon 23
gtaaatgtgaatttgattttggaattcactaattaatctttctgatgtttcttattacatatat---agatcaaatccaacacgtaaaagtgcatatcttattgtttgcttttctcctcagGTTCCACGTGGAGCTGCAGCTCCGGTTTGTTTCAAGACTGGACTTGCCCATCTTGAACAAAACCAGCTTCCAGATGCACTGTCTTGCTTTGACGAAGCAT
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---------------------gattccttcaataaaactgtgatatagttctagtttgctatctctgagtttgtataattttgttttaatttggttccccatctcatggctcacatgacagGTTCCCCGAGAAGCTGCTGCTTCTGTATGTTTCAAGACTGGACTTGCTCACCTTGAGTTAAATCATCTTTCAGATGCTTTGTCTTGCTTTGATGAATCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagatcaaatccaacacgtaaaagtgcatatcttattgtttgcttttctcctcagGTTCCACGTGGAGCTGCAGCTCCGGTTTGTTTCAAGACTGGACTTGCCCATCTTGAACAAAACCAGCTTCCAGATGCACTGTCTTGCTTTGACGAAGCAT
tcttattgtttgcttt CT-rich tract
atatcttattgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatgtgaatttgattttggaattcactaattaatctttctgatgtttcttattacatatatagatcaaatccaacacgtaaaagtgcatatcttattgtttgcttttctcctcagGTTCCACGTGGAGCTGCAGCTCCGGTTTGTTTCAAGACTGGACTTGCCCATCTTGAACAAAACCAGCTTCCAGATGCACTGTCTTGCTTTGACGAAGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG