Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtgcatctcaaccaagaggtgtaagatacttaaagtatgattacttttttttcactattgattgatatgcagtacttgtctgcagCTTAAATATCATGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
Basic information
species | Glycine max |
transcript | GLYMA02G00510.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 9
gtaatgtgcatctcaaccaagaggtgtaagatacttaaagta--tgattacttttttttcactattgatt--gatatgcagtactt--gtctgcagCTTAAATATCATGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
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--------------gtatgatttgcctttgttaatctcagtagttggctaactgctctcagctaataatttgggtatgaaattttgtggctttcagCTGAAATATCATGATACTGGGAAGGAAAAGGAGTGCTTGCCACAAGTTGGTCAGTGGAACATGGTGAACAAG
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G43810.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaatgtgcatctcaaccaagaggtgtaagatacttaaagtatgattacttttttttcactattgattgatatgcagtacttgtctgcagCTTAAATATCATGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG----------------------------
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---gtaaaaaacctaaaca-gatctctga-atgctcatactatgagaatactgtta----tgttaattcgtctctctttgcttgctacagCTTAAGTATCACGAGAACGGGAAAGAAAAAGATTGTCTCCCGCAAGTTGGTCAGTGGAATATGATGAACAAGAAAATGATCAACGGGATGACTGTGAGCA
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 9
gtaatgtgcatctcaaccaagaggtgtaagatacttaaagtatgattacttttttttcactattgattgatatgcagtac---ttgtctgcagCTTAAATATCATGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
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gtaatattcacc--atcctaaatttat---atatgtgaaagatgat-aggtattacacattgt-gcctgatctgacttctattttatctgcagCTGAAATATCATGAAACTGGGAAGGAAAAGGATTGTTTGCCTCAAGTCGGTCAGTGGAATATGATGAACAAA
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ15357 (Selaginella moellendorffii), 3'ss of exon 10
gtaatgtgcatctcaaccaagaggtgtaagatacttaaagtatgattacttttttttcactattgattgatatgcagtacttgtctg-cagCTTAAATATCATGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
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-------------------------------------------gtatgtcttccgaagatcgttaattcaagctctaacgttttctgacagTTGAAGTATCATGATACTGGACGGGAGAAAGACTGCCTTCCTCAAGTTGGGCAGTGGAATATGATGAACAAG
upper sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ24991 (Selaginella moellendorffii), 3'ss of exon 10
gtaatgtgcatctcaaccaagaggtgtaagatacttaaagtatgattacttttttttcactattgattgatatgcagtacttgtctg-cagCTTAAATATCATGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
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-------------------------------------------gtatgtcttccgaagaccgttaattcaagctcaaacgttttctgacagTTGAAGTATCATGATACTGGACGGGAGAAAGACTGCCTTCCTCAAGTTGGGCAGTGGAATATGATGAACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaagtatgattacttttttttcactattgattgatatgcagtacttgtctgcagCTTAAATATCATGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
cttgtct CT-rich tract
tatgattacttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtgcatctcaaccaagaggtgtaagatacttaaagtatgattacttttttttcactattgattgatatgcagtacttgtctgcagCTTAAATATCATGAAAGTGGGAAAGAAAAGAATTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA