Sequence
atgc intronic sequence ATGC exonic sequencegttagtaccatctattttttcagctttggcttttgtggcacctttgcatatggaaagtcaaaaatatgggcaccatcttggaatctagactttgtaagcggatttttaatcagatgaaaaattaacagagtttgatggttggcatcgttatcccttatatttaaggttcatgttgcactcaatttttacagATAGCCAAAAGCGTATGGCTGGTATTGTTCCTTCCATTGAGAAAGCACGCCTTTACCGTGGAAAAGGTGGAGAAATAATGCGACTGGCTGTCTCACGATT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G60740.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G60740.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 10
gttagtaccatctattttttcagctttggcttttgtggcacctttgcatatggaaagtcaaaaatatgggcaccatcttggaatctagactttgtaagcggatttttaatcagatgaaaaattaacagagtttgatggttggcatcgttatcccttatatttaaggttcatgttgcactcaatttttacagATAGCCAAAAGCGTATGGCTGGTATTGTTCCTTCCATTGAGAAAGCACGCCTTTACCGTGGAAAAGGTGGAGAAATAATGCGACTGGCTGTCTCACGATT
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------------------------------------------------------------------------------------actggtcatatgtttaaatctttcttta--ttgaaggtgattgg--tttcaaaataattatgatgctagctgaactgtgacattt---ttgaaattgtcattgacagATAAACAGAAAAGTCTTGCTGGTGTTGTTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
upper sequence: AT3G60740.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G24470.1 (Glycine max), 3'ss of exon 11
gttagtaccatctattttttcagctttggcttttgtggcacctttgcatatggaaagtcaaaaatatgggcaccatcttggaatctagactttgtaagcggatttttaatcagatgaaaaattaacagagtttgatggttggcatcgttatcccttatatttaaggttcatgttgcactcaatttttacagATAGCCAAAAGCGTATGGCTGGTATTGTTCCTTCCATTGAGAAAGCACGCCTTTACCGTGGAAAAGGTGGAGAAATAATGCGACTGGCTGTCTCACGATT
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---------------------------------------------------------------------------------aat---ggtcatatggttaaacctttcttta--ctgaaggtgattagtttcaaaatatttatgatgctagc--tgaactttgacattt---ttgaaattgccattgacagATAAACAGAGAAGTCTTGCTGGCGTTGCTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
upper sequence: AT3G60740.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 10
gttagtaccatctattttttcagctttggcttttgtggcacctttgcatatggaaagtcaaaaatatgggcaccatcttggaatctagactttgtaagcggatttttaatcagatgaaaaattaacagagtttgatggttggcatcgttatcccttatatttaaggttcatgttgcactcaatttttacagATAGCCAAAAGCGTATGGCTGGTATTGTTCCTTCCATTGAGAAAGCACGCCTTTACCGTGGAAAAGGTGGAGAAATAATGCGACTGGCTGTCTCACGATT
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-------------------------------------------------------------------------------tgtgtctctgcttctaactcaaaagt--aattggttgataaattgc-----tttcaagcttctaatttgcaaac----taactcatgatcctga-gcatatatttcttccagATAAGCAGACAAGGTTTGTTGGTATAGTTACTGCTATTGAGAAAGCACGCCTTTATCGTGGGAAGGGTGGAGAGATAATGCGTGCTGCTGTTTCCCGGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttggcatcgttatcccttatatttaaggttcatgttgcactcaatttttacagATAGCCAAAAGCGTATGGCTGGTATTGTTCCTTCCATTGAGAAAGCACGCCTTTACCGTGGAAAAGGTGGAGAAATAATGCGACTGGCTGTCTCACGATT
tttttac CT-rich tract
ttatatttaaggtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtaccatctattttttcagctttggcttttgtggcacctttgcatatggaaagtcaaaaatatgggcaccatcttggaatctagactttgtaagcggatttttaatcagatgaaaaattaacagagtttgatggttggcatcgttatcccttatatttaaggttcatgttgcactcaatttttacagATAGCCAAAAGCGTATGGCTGGTATTGTTCCTTCCATTGAGAAAGCACGCCTTTACCGTGGAAAAGGTGGAGAAATAATGCGACTGGCTGTCTCACGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA