Sequence
atgc intronic sequence ATGC exonic sequence...aacagagggtttatgcgattggtgtagcattttaatcttgcaaagttgatctagtctttgcttattcgtttaactgagaatgcttctgtttgattgacagGTCTTGCAAAAAGCTTTGGAAGTGTGGGATCTACAAGTAATTCCACTCAATTGTCCAGATGCAGAGCCTGCGCAGATAGACCCTGAGCTTGAAAGCGCCT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G54130.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G54130.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA03G14740.1 (Glycine max), 3'ss of exon 1
aacagagggtttatgcgattggtgtagcattttaatcttgcaaagttg-atctag--tctttgc---ttattcgtttaactgagaatgcttctgtttgattgacagGTCTTGCAAAAAGCTTTGGAAGTGTGGGATCTACAAGTAATTCCACTCAATTGTCCAGATGCAGAGCCTGCGCAGATAGACCCTGAGCTTGAAAGCGCCT
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----tttgttgcatgcatcaaatatta-attttgggcatgcaatttaggatttggatcctttgcaattttatgatttacttaattatgcaaagccttttctg-tagGTTTTACAAAAGGCTCTGGAAGTGTGGGACCTACAAGTTATCCCTCTTGACTCTCCAGTTGCTGAGCCTGCCCAGATTGACCCTGAGCTGGAAAATGCCT
upper sequence: AT3G54130.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv08s0007g01730.t01 (Vitis vinifera), 3'ss of exon 1
aacagagggtttatgcgattggtgtagcattttaatcttgcaaagttgatctagtctttgcttattcgtttaact-gagaatgcttctg---tttgattgacagGTCTTGCAAAAAGCTTTGGAAGTGTGGGATCTACAAGTAATTCCACTCAATTGTCCAGATGCAGAGCCTGCGCAGATAGACCCTGAGCTTGAAAGCGCCT
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--tgctgggcaaaatgaaaaactgtgggctttt--ttccatggtgactattgcatggtgccatattcagccaacttgatgatgtgtcaaaattcctgtctgcagGTTCTGCAAAAAGCTTTGGAGGTGTGGGATCTGCAAGTGATCCCCCTTGATTGTCCAGTTGCTGAGCCTGCCCAGATCGACCCTGAGCTGGAAAATGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatctagtctttgcttattcgtttaactgagaatgcttctgtttgattgacagGTCTTGCAAAAAGCTTTGGAAGTGTGGGATCTACAAGTAATTCCACTCAATTGTCCAGATGCAGAGCCTGCGCAGATAGACCCTGAGCTTGAAAGCGCCT
cttctgttt CT-rich tract
tttaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacagagggtttatgcgattggtgtagcattttaatcttgcaaagttgatctagtctttgcttattcgtttaactgagaatgcttctgtttgattgacagGTCTTGCAAAAAGCTTTGGAAGTGTGGGATCTACAAGTAATTCCACTCAATTGTCCAGATGCAGAGCCTGCGCAGATAGACCCTGAGCTTGAAAGCGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
aacagag
- - - -ggtttat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgcttc