Sequence
atgc intronic sequence ATGC exonic sequencegtcagtttcttgattgacttcttgtgcttaacatggtatgctttggaaattactttggcattaaaaatgctttgaatttgacatgcagGAATGATGGGCTCTGGGAAAACAACGGTGGGGAAGATAATGTCACAAGTGCTTGGTTATTCATTTTGTGATAG
Basic information
species | Glycine max |
transcript | GLYMA08G14980.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G14980.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G21940.4 (Arabidopsis thaliana), 3'ss of exon 4
gtcagtttcttgattgacttcttgtgcttaacatggtatgctt-tggaaattactttggcattaaaaatgctttgaatttgacatgcagGAATGATGGGCTCTGGGAAAACAACGGTGGGGAAGATAATGTCACAAGTGCTTGGTTATTCATTTTGTGATAG
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gtcagtttctttgtctgctctatgt-ttgcatatggtctacttcttgatacttatatgtaatctga--tgattccgtggtga-acacagGAATGATGGGTTCTGGGAAAACAACTGTGGGAAAGTTAATGTCCAAAGTGCTCGGTTATACGTTCTTTGACTG
upper sequence: GLYMA08G14980.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0031g01600.t01 (Vitis vinifera), 3'ss of exon 4
gtcagtttcttgattgacttcttgtgcttaacatggtatgctttgg--aaattactttggcattaaaaatgctttgaatttgacatgcagGAATGATGGGCTCTGGGAAAACAACGGTGGGGAAGATAATGTCACAAGTGCTTGGTTATTCATTTTGTGATAG
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gtcagttcctgtatctacgccctttagatttcgtagttagtcatgtttaagttgctcttgtagttgac-tagattgtacttgaaatgcagGGATGATGGGTTCTGGAAAAACAACTATTGGCAAGATTTTGTCAGAAGTGCTTGGTTATTCATTTTGCGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtatgctttggaaattactttggcattaaaaatgctttgaatttgacatgcagGAATGATGGGCTCTGGGAAAACAACGGTGGGGAAGATAATGTCACAAGTGCTTGGTTATTCATTTTGTGATAG
atttgac putative branch site (score: 4)
attaaaaatgcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtttcttgattgacttcttgtgcttaacatggtatgctttggaaattactttggcattaaaaatgctttgaatttgacatgcagGAATGATGGGCTCTGGGAAAACAACGGTGGGGAAGATAATGTCACAAGTGCTTGGTTATTCATTTTGTGATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA