Sequence
atgc intronic sequence ATGC exonic sequencegtaacaattaattataatctactaatctcccttctcaatttcatctcatttatccgaatacaagataattaatatcttgttgtgtataaaataagatccaataaattaatttgatttactactaatggcagGAGTTTTTCAAGGCGCATCCTGAGTTTGTTAAGAATGATTTTTATATTACTGGAGAATCATACGCTGGGCACTATGTTCCGGCACTTGCATCCCGGGTTA
Basic information
species | Glycine max |
transcript | GLYMA11G19960.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G19960.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G45010.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaacaattaattataatctactaatctcccttctcaatttcatctcatttatccgaatacaagataattaatatcttgttgtgtataaaataagatccaataaattaatttgatttactactaatggcagGAGTTTTTCAAGGCGCATCCTGAGTTTGTTAAGAATGATTTTTATATTACTGGAGAATCATACGCTGGGCACTATGTTCCGGCACTTGCATCCCGGGTTA
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---------------------------------------------------------gttcggtttcaattctttcctctgtttcatcacattaaaaacatgttcttgacgtgacacatt-ttctttgcagGCGTTTTTCAAAGAGCATCCACAATTTGTGAAGAATGATTTTTACATTACCGGTGAATCCTACGCTGGACATTACATTCCGGCATTGGCTTCACGTGTTC
upper sequence: GLYMA11G19960.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0061g00520.t01 (Vitis vinifera), 3'ss of exon 3
gtaacaattaattataatctactaatctccct-tctcaatttcatctcatttatccgaatacaagataattaatatcttgttgtgtataaaataagatccaataaatta---attt------gatttactac----taatggcagGAGTTTTTCAAGGCGCATCCTGAGTTTGTTAAGAATGATTTTTATATTACTGGAGAATCATACGCTGGGCACTATGTTCCGGCACTTGCATCCCGGGTTA
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------gtcactctgcgtctccttatctttctgtgccaaatctaaaacattta--cgtatacctctttgtgcaaatcac-tcttgtcaactgtaaaatccttcatgttattgattctcagaaagtgtaaaaccctgtaatgtcagGCATTTTTTGCAAAGCATCCTGAGTTCGTGAAGAATGACTTTTACATAACTGGAGAATCATACGCTGGCCACTACATTCCTGCGTTTGCTGCTCGGGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttgtgtataaaataagatccaataaattaatttgatttactactaatggcagGAGTTTTTCAAGGCGCATCCTGAGTTTGTTAAGAATGATTTTTATATTACTGGAGAATCATACGCTGGGCACTATGTTCCGGCACTTGCATCCCGGGTTA
tactaat putative branch site (score: 1)
tataaaataagatcca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacaattaattataatctactaatctcccttctcaatttcatctcatttatccgaatacaagataattaatatcttgttgtgtataaaataagatccaataaattaatttgatttactactaatggcagGAGTTTTTCAAGGCGCATCCTGAGTTTGTTAAGAATGATTTTTATATTACTGGAGAATCATACGCTGGGCACTATGTTCCGGCACTTGCATCCCGGGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA