Sequence
atgc intronic sequence ATGC exonic sequencegtaggcggatcttacttctctctctctctctgtccatattgtgtggagatgcttcaaagacttttgttgtaattattaattgcacactatattggtggatgtacttagGTGATCGGCTCAGCTGCAGATAGGGACCGGATTCCTGGAATTGATGTAGCCTTGAAAGATGCTGACAAATGGATGTTTGCTGGCCATGAAGTCCATATTA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G06130.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G06130.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA15G03320.1 (Glycine max), 3'ss of exon 3
-gtaggcggatcttacttctctctctctctctgtccatattgtgtggagatgcttcaaagacttttgttgtaattattaattgcacactatattggtggatgtacttagGTGATCGGCTCAGCTGCAGATAGGGACCGGATTCCTGGAATTGATGTAGCCTTGAAAGATGCTGACAAATGGATGTTTGCTGGCCATGAAGTCCATATTA
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aaaggtctgaattttctaaaagcagttttttgatgtattttttatatgcttactagttactactttgt-gtagatgttaa-----cacttccatgttgca---aaacagGTGATTGGTTCAGGAACTGACAAGAAAAGGATTCCTGGCATTGATATCCACTTGAACGATGGTGATAAGTGGATGTTTGCTGGCCATGAGGTGCGTGTAA
upper sequence: AT1G06130.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv05s0102g01180.t01 (Vitis vinifera), 3'ss of exon 5
gtaggcggatcttacttctctctctctctctgtccatattgtgtggagatgcttcaaagacttttgttgtaattattaattgcacactatattggtggatgtact-tagGTGATCGGCTCAGCTGCAGATAGGGACCGGATTCCTGGAATTGATGTAGCCTTGAAAGATGCTGACAAATGGATGTTTGCTGGCCATGAAGTCCATATTA
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-tttgtgaagca-gttcattttgcccatgcttatgattttttttgaaattgt-----aaacttatgctttt-ttgtgaagt-tttaccctttttgtgggtttcttgtagGTAATTGGTTCTGGAATAGACAAGGATCGAATTCCTGGAATTGATATAGTTTTGAAAGATGGAGACAAGTGGATGTTTGCAGGCCATGAGGTGGTTGTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaagacttttgttgtaattattaattgcacactatattggtggatgtacttagGTGATCGGCTCAGCTGCAGATAGGGACCGGATTCCTGGAATTGATGTAGCCTTGAAAGATGCTGACAAATGGATGTTTGCTGGCCATGAAGTCCATATTA
tattaat putative branch site (score: 2)
acttttgttgtaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggcggatcttacttctctctctctctctgtccatattgtgtggagatgcttcaaagacttttgttgtaattattaattgcacactatattggtggatgtacttagGTGATCGGCTCAGCTGCAGATAGGGACCGGATTCCTGGAATTGATGTAGCCTTGAAAGATGCTGACAAATGGATGTTTGCTGGCCATGAAGTCCATATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG