Sequence
atgc intronic sequence ATGC exonic sequence...gcagttttgtagatgtactgatttcctttcatactttagataattgctggaattaaggcttctaaatttaaggtttgaaagctgtactggtctatttcagGTTTGGAGATTTTTTATTAACTTTGCTGATGTTCTGGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
Basic information
species | Glycine max |
transcript | GLYMA13G24370.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G24370.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G28420.1 (Arabidopsis thaliana), 3'ss of exon 8
----------------------------------------------------------------gcagttttgtagatgtactgatttcctttca--tactttagataattgctgga--attaaggcttct--aaatttaaggt-ttgaaagctgtactggtctatttcagGTTTGGAGATTTTTTATTAACTTTGCTGATGTTCTGGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
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gtatgttgtattgatctttaccctctctccggctgctacctctcatttaaaattagtattatgatcagaataacttggagaccaatttgaaatcagttggatttgtttttccgtgtattatgcacccttttgcagatttcacatatcttatgttgtgattgctt--ttcagGTTTGGAGATTCCTGATATCATTTTCTGATGTTCTTGACCTATGGCCTTTTACACTGGATGAGTTTATTCAGGCTTTTCATGACTAT
upper sequence: GLYMA13G24370.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0003g00290.t01 (Vitis vinifera), 3'ss of exon 8
--gcagttttgtagatgtactgatttcctttcatactttagataattgctggaattaaggcttctaaatttaaggtttgaaagctgtactggtctatttcagGTTTGGAGATTTTTTATTAACTTTGCTGATGTTCTGGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
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tccttgtctcactgttatttaggtaaaagtgtaattttgtctaaaatcatgtatatagcatgtctgatcttgaggtttaaggacactgtt--ttttccccagGTCTGGAGATTTTTAATCACTTTTGCCGATGTGCTTCAGTTATGGCCTTTTACTCTTGATGAGTTTGTCCAAGCTTTTCATGACTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctggaattaaggcttctaaatttaaggtttgaaagctgtactggtctatttcagGTTTGGAGATTTTTTATTAACTTTGCTGATGTTCTGGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
ttctaaa putative branch site (score: 2)
tctatttc putative PPT
taaatttaaggttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcagttttgtagatgtactgatttcctttcatactttagataattgctggaattaaggcttctaaatttaaggtttgaaagctgtactggtctatttcagGTTTGGAGATTTTTTATTAACTTTGCTGATGTTCTGGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
- - - - - - - - - - - - cctttca
- - - - - - - - - - - - - - - - - - - - - - tgctgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agctgta