Sequence
atgc intronic sequence ATGC exonic sequencegtaatgcagtgctttcatctctgtatattgttattgaattgttatagactttttacttacctttcttgctttactcttttcctctgcagATATGGGATTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
Basic information
species | Glycine max |
transcript | GLYMA08G20610.1 |
intron # | 8 |
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 8
lower sequence: LOC_Os01g39310.3 (Oryza sativa), 3'ss of exon 8
gtaatgcagtgctttcatctctgtatattgttattgaattgttatagactttttacttacctttcttgctttactcttttcctct----gcagATATGGGATTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
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-----gta-tgcatttacttgagagcccttttcctgtctgcct---gacctttcttccattttaaatacactaatcttttcgtcttgctgcagATATGGGATGGTGTCCCTAAACCCCATGCCCACAAGGAAACTCCACTGAGTGAATTTTTCAAT
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 8
lower sequence: AC196426.3_FGT007 (Zea mays), 3'ss of exon 7
gtaatgcagtgctttcatctctgtatattgttattgaattgttatagactttttacttacctttcttgctttactcttttcctctgcagATATGGGATTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
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gta-tgtgttttgttgataccc-tgttttcttttgagacatttgtgtttttgtggcctataataa--gctgtatacatttttgctgcagATATGGGATGCTGTTCCGAAACCCCATGCCCATAAAGAAACTCCAATTAGTGAATTTTTCGAT
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G13870.2 (Arabidopsis thaliana), 3'ss of exon 8
gtaatgcagtgctttcatctctgtatattgttattgaattgttatagactttttacttacctttcttgctttactcttttcctctgcagATATGGGATTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
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gtagaagacagtcttagcctttatgtactttgactaa-------tagagcaatcccttaatgtttgtccttaaaa---------tgcagATATGGGATTCAGTTCCCAAGCCTCAGGCCCACAAAGAAACTCCACTTAGCGATTTCTTCAAT
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G72960.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatgcagtgctttcatctctgtatattgttattgaattgttatagactttttacttacctttcttgctttactcttttcctctgcagATATGGGATTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
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gtaaaagag-gagtgagtgactttcagctaattccaagttg--ataagctgatcaccg-----ttttgttttgttcttcattgtggcagATATGGGATTCTGTTCCAAAGCCTGAAGCACACAAGGAAACTCCTCTAAGTGACTTTTTCAAT
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 3'ss of exon 8
gtaatgcagtgctttcatctctgtatattgttattgaattgttatagactttttacttacctttcttgctttactcttttcctctgcagATATGGGATTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
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gtaaagaatttgttgtttccttgtttatt-ttattaa----ccatgagttgttgattt---tgtaatgtgtt-cttttactgtatgcagATATGGGACTCTGTTCCTAAGCCACAAGCACATAAGGAAACTCCGCTGAGTGAATTTTTTAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaattgttatagactttttacttacctttcttgctttactcttttcctctgcagATATGGGATTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
tacttac putative branch site (score: 1)
ctttttacttaccttt CT-rich tract
ttatagacttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgcagtgctttcatctctgtatattgttattgaattgttatagactttttacttacctttcttgctttactcttttcctctgcagATATGGGATTCTGTTCCTAAACCACAGGCCCACAAGGAAACCCCATTAAGTGAATTTTTCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA