Sequence
atgc intronic sequence ATGC exonic sequencegtggagaacatcgagctcataaaagttagatgacttaatcaatctgattgccatgcttgatcttacttaattgccttactaattatcttcttgttacttgtagGACCCAACAAATACCACTCGTAACCGTGGTTTTGCATTTGTTTTGTACTATAACAATGCATGTGCTGATTATTCAAGACAGAAAATGATAGATTCTAATT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G00830.3 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G00830.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G44860.1 (Glycine max), 3'ss of exon 4
gtggagaacatcgagctcataaaagttagatgactta-atcaatctgattgccatgcttgatcttacttaattgccttactaattatcttcttgttacttgtagGACCCAACAAATACCACTCGTAACCGTGGTTTTGCATTTGTTTTGTACTATAACAATGCATGTGCTGATTATTCAAGACAGAAAATGATAGATTCTAATT
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gtgtgcagtcttgaactaactgtgct--actaatttatattaaactg-ttgtcaggcct-acctt--tttattcccactcca-------ttttgtttatatcagGACCCTCAAAATCCTAGTAGGAACCGTGGGTTTGCGTTTGTTTTGTATTACAATAATGCATGTGCTGATTATTCGCGGCAAAAGATGGCAAGTTCTAGCT
upper sequence: AT4G00830.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G42150.1 (Glycine max), 3'ss of exon 4
gtggagaacatcgagctcataaaagttagatgactta-atcaatctgattgccatgcttgatcttacttaattgccttactaattatcttcttgttacttgtagGACCCAACAAATACCACTCGTAACCGTGGTTTTGCATTTGTTTTGTACTATAACAATGCATGTGCTGATTATTCAAGACAGAAAATGATAGATTCTAATT
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gtatgcagtcttgaactaactatgct--actaatttacattaagctg-ttgtcaggcgc-acctt--tttattcccactcca-------ttttgtttatatcagGATCCTCAAAATCCTAGTAGGAATCGTGGGTTTGCGTTTGTTTTGTATTACAATAATGCATGTGCTGATTATTCGCGGCAAAAGATGGCAAGTTCTAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgccatgcttgatcttacttaattgccttactaattatcttcttgttacttgtagGACCCAACAAATACCACTCGTAACCGTGGTTTTGCATTTGTTTTGTACTATAACAATGCATGTGCTGATTATTCAAGACAGAAAATGATAGATTCTAATT
tactaat putative branch site (score: 1)
tcttcttgttactt putative PPT
ttactaattatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggagaacatcgagctcataaaagttagatgacttaatcaatctgattgccatgcttgatcttacttaattgccttactaattatcttcttgttacttgtagGACCCAACAAATACCACTCGTAACCGTGGTTTTGCATTTGTTTTGTACTATAACAATGCATGTGCTGATTATTCAAGACAGAAAATGATAGATTCTAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT