Sequence
atgc intronic sequence ATGC exonic sequencegtaattcctatagaagttagtttttgtttcttttttggttatcatgtttgtgatctgaccattccttcttgttttccttttcagAGCGTGCCGAACAGGTAATTTTATTGCCTTCTTTCGGCTTGCAAGAAAAGCAACTTATCTTCAAGCATGCCTAATGCATGCTCACTTTTCTAAG
Basic information
species | Glycine max |
transcript | GLYMA13G28300.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g45160.1 (Oryza sativa), 3'ss of exon 13
gtaattcctatagaagttagtttttgtttcttttttggttatcatgtttgtgatctgaccattccttcttgttttccttttcagAGCGTGCCGAACAGGTAATTTTATTGCCTTCTTTCGGCTTGCAAGAAAAGCAACTTATCTTCAAGCATGCCTAATGCATGCTCACTTTTCTAAG
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gtagtcatactatctacttttgtttgtacttatcaagttcattg-atttgtgatttaacaccttttttccctattgccattcagAGCTTGCCGAATGGGGAACTTTATTGCCTTCTTTCGTCTTGCAAGGAAAGCAACATACTTGCAGGCTTGTTTGATGCATGCTCACTTTGCAAAG
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G06290.1 (Arabidopsis thaliana), 3'ss of exon 14
gtaattcctatagaagttagtttttgtttcttttttggttatcatgtttgtgatctgaccattccttcttgttttccttttcagAGCGTGCCGAACAGGTAATTTTATTGCCTTCTTTCGGCTTGCAAGAAAAGCAACTTATCTTCAAGCATGCCTAATGCATGCTCACTTTTCTAAG
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gtagttcct-tgga--tt--tttttgttggctgttagttttttaactt---gatctaagtattgaaaccagtcgtgcaaaacagAGCTTGCAGAACTGGCAACTTCATCGCCTTCTTTCGCCTTGCACGGAAAGCAAGCTATCTTCAAGCATGTCTAATGCATGCTCATTTTTCGAAA
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv05s0020g02350.t01 (Vitis vinifera), 3'ss of exon 9
gtaattcctatagaagttagtttttgttt-cttttttggttatcatgtttgtgatctgaccattccttcttgttttcctt--ttcagAGCGTGCCGAACAGGTAATTTTATTGCCTTCTTTCGGCTTGCAAGAAAAGCAACTTATCTTCAAGCATGCCTAATGCATGCTCACTTTTCTAAG
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---------gtttgcctccccttaaatccacttgtcaggttgaagcattgaacagaatctcatattagagtgattgtcttcatgcagAGCTTGCAGAACAAGTAATTTCATTGCTTTCTTTCGGCTTGGGAAGAAAGCAAGTTATCTTCAAGCATGCCTAATGCATGCTCACTTTGCTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttttggttatcatgtttgtgatctgaccattccttcttgttttccttttcagAGCGTGCCGAACAGGTAATTTTATTGCCTTCTTTCGGCTTGCAAGAAAAGCAACTTATCTTCAAGCATGCCTAATGCATGCTCACTTTTCTAAG
atctgac putative branch site (score: 3)
tctgaccattccttct CT-rich tract
ttatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcctatagaagttagtttttgtttcttttttggttatcatgtttgtgatctgaccattccttcttgttttccttttcagAGCGTGCCGAACAGGTAATTTTATTGCCTTCTTTCGGCTTGCAAGAAAAGCAACTTATCTTCAAGCATGCCTAATGCATGCTCACTTTTCTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA