Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgttgttggcctattgactacaagaacttgaatcttgaatcttgaaacttgtcaattgtcatttatttaactgcacactaaattttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGCTGTTTGTCATACGTGATAAAACAAGG
Basic information
species | Glycine max |
transcript | GLYMA08G20610.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g39310.3 (Oryza sativa), 3'ss of exon 6
----gtatgt-gttgttggcctattgactacaagaacttgaatcttgaatcttgaaacttgtcaattgtcatttatttaactgcacactaaattttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGCTGTTTGTCATACGTGATAAAACAAGG
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gtcagtttgttagtgctacaatgtgggcttattttctttgattcctgattcttcagtggtggaagatactata-atatcattgtgtctttgtcaacctgaatagGTTATGATGAGATTGTTCAGTCCACGTAAAACGACATTGTTGTTTGTTATTCGTGATAAATCAAAG
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 6
lower sequence: AC196426.3_FGT007 (Zea mays), 3'ss of exon 5
gtatgtgttgttggcctattgactacaagaacttgaatcttgaatcttgaaacttgtcaattgtcatttatttaactgcacactaaattt-tactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGCTGTTTGTCATACGTGATAAAACAAGG
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---------------------------------------------------------------gtatttaccttgggattttctttcttcatatgtgtagGTCATGATGAGGTTGTTCAGTCCTCGCAAAACAACATTGTTGTTTGTTATACGTGACAAATCAAGG
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G72960.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgtgttgttggcctattgactacaagaacttgaatcttgaatcttgaaacttgtcaattgtcatttatttaactgcacactaaattttacttt--cagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGCTGTTTGTCATACGTGATAAAACAAGG
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gtattttttttgatgctcaggaagttaaaaactct--ttgtgtatcacaaaaatattttcttaccctaagtttgaat---ctttggagttgggtttggcagGTGATGATGCGATTGTTTAGTCCACGTAAAACAACAATGCTGTTTGTAATACGAGATAAAACCCGG
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 3'ss of exon 6
gtatgtgttgttggcctattgactacaagaacttgaatcttgaatcttgaaacttgtcaattgtcatttatttaactgcacactaaattttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGCTGTTTGTCATACGTGATAAAACAAGG
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-----------gtatctctttatgctgacaatt---attctgaatctcaagagct--------tcagttgtctaactttatgatgttatatccttacagGTTATGATGCGATTGTTTAGTCCACGAAAAACAACTTTGATGTTTGTTATTCGTGATAAAACAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgaaacttgtcaattgtcatttatttaactgcacactaaattttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGCTGTTTGTCATACGTGATAAAACAAGG
cactaaa putative branch site (score: 2)
ttttactttc CT-rich tract
aattgtcatttattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgttgttggcctattgactacaagaacttgaatcttgaatcttgaaacttgtcaattgtcatttatttaactgcacactaaattttactttcagGTCATGATGAGATTGTTTAGTCCACGAAAAACAACATTGCTGTTTGTCATACGTGATAAAACAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT