Sequence
atgc intronic sequence ATGC exonic sequencegtaaagctagttcagagggctagctgaatgattgtttcatgatattttgattaaatgtgtcagtgaatgtgttcaaaagagtgtattgctaacatttctctttgattaaatttaatctgtgctaactgaaagtgaatttgaagGGGAAGGTAGGCCAGTGCTGGACTGGACAAAACGTGTTAAAATTGCGGCTGGGGCAGCCAGAGGAATAGCTTATCTCCATGAAGACT
Basic information
species | Glycine max |
transcript | GLYMA16G19520.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G19520.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G26150.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaagctagttcagagggctagctgaatgattgtttcatgatattttgattaaatgtgtcagtgaatgtgttcaaaagagtgtattgctaacatttctctttgattaaatttaatctgtgctaactgaaagtgaatttgaagGGGAAGGTAGGCCAGTGCTGGACTGGACAAAACGTGTTAAAATTGCGGCTGGGGCAGCCAGAGGAATAGCTTATCTCCATGAAGACT
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----------------------------------------------------------gtaagtaa--gatttctagacataaaagcacaaac-------ccaaaccacatttacttattactatctttccatgg-tctttagCCGCAGGAACTCCGGGTCTAGACTGGGCAACACGTGTTAAAATTGCTGCTGGTGCGGCTCGTGGACTAGCTTATCTCCATGAAGATT
upper sequence: GLYMA16G19520.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G68690.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaagctagttcagagggctagctgaatgattgtttcatgatattttgattaaatgtgtcagtgaatgtgttcaaaagagtgtattgctaacatttctctttgattaaatttaatctgtgctaactgaaagtgaatttgaagGGGAAGGTAGGCCAGTGCTGGACTGGACAAAACGTGTTAAAATTGCGGCTGGGGCAGCCAGAGGAATAGCTTATCTCCATGAAGACT
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--------------------------------------------------------gtaa-agaaaaagcatctccaagattacatt--ttatatatatacacacaccactgggactgacactatct--acatgtctcttaaacagGAGAAAAATCTGTTCTAGACTGGGCAACACGTGTTAAAATTGCGGCTGGGGCAGCTCGTGGACTAGCTTATCTTCATGAAGATT
upper sequence: GLYMA16G19520.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g02460.t01 (Vitis vinifera), 3'ss of exon 2
gtaaagctagttcagagggctagctgaatgattgtttcatgatattttgattaaatgtgtcagtgaatgtgttcaaaagagtgtattgctaacatttctctttgattaaatttaatctgtgctaactgaaagtgaatttgaagGGGAAGGTAGGCCAGTGCTGGACTGGACAAAACGTGTTAAAATTGCGGCTGGGGCAGCCAGAGGAATAGCTTATCTCCATGAAGACT
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--------------------------------------------------gtaaggctgt-agtga-taagcttccaagaatagtttgtggtaatggataactgattatgtgt------tgctccttgtaa-----tttgtagGGGAAGGTAGGCCAGTTATGGACTGGGCAACACGTGTTAAGGTTGCTGCTGGTGCAGCTCGTGGAATAGCTTATCTTCATGAAGACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaacatttctctttgattaaatttaatctgtgctaactgaaagtgaatttgaagGGGAAGGTAGGCCAGTGCTGGACTGGACAAAACGTGTTAAAATTGCGGCTGGGGCAGCCAGAGGAATAGCTTATCTCCATGAAGACT
tgctaac putative branch site (score: 1)
atttctctttgattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagctagttcagagggctagctgaatgattgtttcatgatattttgattaaatgtgtcagtgaatgtgttcaaaagagtgtattgctaacatttctctttgattaaatttaatctgtgctaactgaaagtgaatttgaagGGGAAGGTAGGCCAGTGCTGGACTGGACAAAACGTGTTAAAATTGCGGCTGGGGCAGCCAGAGGAATAGCTTATCTCCATGAAGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA