Sequence
atgc intronic sequence ATGC exonic sequence...ttattgaagaacttgttaagacaaatacttttacaatgccaaattgatttacaactactcaggtgtgcaactacattttcatgttcttacacaaatgaagGTTTCACAATATGTCCCAAAGTACATGATGGCAGCCGGAGAAAGAGCTGAGCTTCGTGGTCTAAATTTAGTCGGCCTTACTCGATGTGGATTCAGCGTTG
Basic information
species | Glycine max |
transcript | GLYMA01G00620.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G00620.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G29540.2 (Arabidopsis thaliana), 3'ss of exon 7
ttattgaagaacttgttaagacaaatacttttacaatgccaaattgatttacaactactcaggtgtgcaactacattttcatgttcttacacaaatgaagGTTTCACAATATGTCCCAAAGTACATGATGGCAGCCGGAGAAAGAGCTGAGCTTCGTGGTCTAAATTTAGTCGGCCTTACTCGATGTGGATTCAGCGTTG
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--------------------gtaaattttcctctaatacc--------tctcaaatgtcctcatttccaacagttactcactggtacggta-atatatagGTCTCACAAGATGTTCCAAAGTACATGATGGTGGCTGGAGAAAGAGCCGAACTTCGCGGTTTGAATCTGGAGGGACTTAGACGAAATGGATTTACCATGT
upper sequence: GLYMA01G00620.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g02420.t01 (Vitis vinifera), 3'ss of exon 7
ttattgaagaacttgttaagacaaatacttttacaatgcc--aaattgatttacaactactcag-gtgtgcaactacattttcatgttcttacacaaatgaagGTTTCACAATATGTCCCAAAGTACATGATGGCAGCCGGAGAAAGAGCTGAGCTTCGTGGTCTAAATTTAGTCGGCCTTACTCGATGTGGATTCAGCGTTG
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--attatttgtcctga-gaatcaaataaaattattcttcttggaaatgatacatattcttctagcatgggttgatctgattttcttattgtgtatgactgaagCTTTCAAAAGATGTCCCAAAATACATGATGGTGTCTGGAGAAAGAGCTGAGCTCCGTGGTTTGAATTTTGAGGGTCTTCGACGTCGTGGATTCTCAGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttacaactactcaggtgtgcaactacattttcatgttcttacacaaatgaagGTTTCACAATATGTCCCAAAGTACATGATGGCAGCCGGAGAAAGAGCTGAGCTTCGTGGTCTAAATTTAGTCGGCCTTACTCGATGTGGATTCAGCGTTG
ttcttac putative branch site (score: 2)
tacatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttattgaagaacttgttaagacaaatacttttacaatgccaaattgatttacaactactcaggtgtgcaactacattttcatgttcttacacaaatgaagGTTTCACAATATGTCCCAAAGTACATGATGGCAGCCGGAGAAAGAGCTGAGCTTCGTGGTCTAAATTTAGTCGGCCTTACTCGATGTGGATTCAGCGTTG
- - -gaagaac
- - - - - - - - -aagacaaa
- - - - - - - - - - - - - - - - -caatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - ctactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcaact