Sequence
atgc intronic sequence ATGC exonic sequence...attgaatactgtgctgattgatatagggactaggattggattttgacaaactgtgtctcatttatagctggctctgtctaatgaaatgatttctggccagCAATGCAAAATCGCCAAGTTGTTTTTATCCCATACCACAAGCTGCAGACTGCATCAGTCGGATGGTGGAAAGGGCCAATGCTCCAGTCATCTACCTTTCA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G17270.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G17270.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv09s0002g00200.t01 (Vitis vinifera), 3'ss of exon 1
attgaatactgtgctgattg-atatagggactaggat--tgga-ttttgacaaactgtgtctcatttatagctggctctgtctaatgaaatgatttctggccagCAATGCAAAATCGCCAAGTTGTTTTTATCCCATACCACAAGCTGCAGACTGCATCAGTCGGATGGTGGAAAGGGCCAATGCTCCAGTCATCTACCTTTCA
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--aaagtggggcacagagagtgtatagtgtctgagttggtgaacttttgaacagaactttgccatcaaaatttatctctaacattcttgcttatttt--gtcagTAATGCTAAAGAACCAAGTTGCTTTTTCCCCATTCCCCAAGCTGCAGACTGCATTAGTCGTGTGGTTGAGAGGGCTGATACACCAGTCATCTATCTTTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaaactgtgtctcatttatagctggctctgtctaatgaaatgatttctggccagCAATGCAAAATCGCCAAGTTGTTTTTATCCCATACCACAAGCTGCAGACTGCATCAGTCGGATGGTGGAAAGGGCCAATGCTCCAGTCATCTACCTTTCA
gtctaat putative branch site (score: 3)
tttct putative PPT
taatgaaatgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attgaatactgtgctgattgatatagggactaggattggattttgacaaactgtgtctcatttatagctggctctgtctaatgaaatgatttctggccagCAATGCAAAATCGCCAAGTTGTTTTTATCCCATACCACAAGCTGCAGACTGCATCAGTCGGATGGTGGAAAGGGCCAATGCTCCAGTCATCTACCTTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - ggattgg
- - - - - - - - - - - - - - - - - - - - - - -acaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgaaa