Sequence
atgc intronic sequence ATGC exonic sequence...agttctgctagtaatgtaaatagttttgtttcttgtgaaaaaacatccatatcctgactgcgatatttctgctaaaccttcctgttgtccttccctgcagAAAGACAAAGTAAAACCTATGCATGTTATTGATGTTCCTGGTCATGCTAGGCTCAAACCCAAACTTGATGAAGTCCTGCCTAAAGTTGCTGCGGTTGTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G466947_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os08g41250.2 (Oryza sativa), 3'ss of exon 3
---------------------------------agttctgcta-gtaatgtaaatagttttgtt-tcttgtgaaaaaacatccatatcctgactgcgatatttctgctaaaccttcctgttgtccttccctgcagAAAGACAAAGTAAAACCTATGCATGTTATTGATGTTCCTGGTCATGCTAGGCTCAAACCCAAACTTGATGAAGTCCTGCCTAAAGTTGCTGCGGTTGTCT
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gtaaggcaacttcttagagacaaatattttaaacatcttgatatgaaatgaaaggaagactatcctgttatatagaaccatgcatttgctgactacaatatat-tgatgcatgttcttgtt----cgctctgcagAGAGGCAAAGTAAAACCTGTTCATGTTGTTGACGTTCCTGGTCATGCAAGGCTCAAACCCAAACTTGATGAAGTCCTGCCTCAAGCAGCTGGAATAGTTT
upper sequence: GRMZM2G466947_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g27870.1 (Oryza sativa), 3'ss of exon 2
-------------------agttctgctagtaatgtaaatagttttgtttc-ttgtgaaaaaacatccatatcctgactgcgatatttctgctaaacc-------ttcctgttgtccttccctgcagAAAGACAAAGTAAAACCTATGCATGTTATTGATGTTCCTGGTCATGCTAGGCTCAAACCCAAACTTGATGAAGTCCTGCCTAAAGTTGCTGCGGTTGTCT-------------------------------------------------
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gtaagacgactcattacagagaaatattttcagcgaaaggaagactatctggttatgtagaaacatgtatttgctgactaaagtgcaattgaacagatggcttgatctctgttcttgttctctgcagaaaagcaaaataaagcctgttcatgttgttgatgttcctggtcatgcagGGCTCAAACCCAAGCTTGATGAAGTCCTGCCTCAAGCAGCTGGGATAGTTTTTGCTGTTGATGCTCAAGATTTCTTGTCCACCATGCAAGTCGTTGCAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccatatcctgactgcgatatttctgctaaaccttcctgttgtccttccctgcagAAAGACAAAGTAAAACCTATGCATGTTATTGATGTTCCTGGTCATGCTAGGCTCAAACCCAAACTTGATGAAGTCCTGCCTAAAGTTGCTGCGGTTGTCT
tgctaaa putative branch site (score: 2)
ccttcctgttgtcctt CT-rich tract
atatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttctgctagtaatgtaaatagttttgtttcttgtgaaaaaacatccatatcctgactgcgatatttctgctaaaccttcctgttgtccttccctgcagAAAGACAAAGTAAAACCTATGCATGTTATTGATGTTCCTGGTCATGCTAGGCTCAAACCCAAACTTGATGAAGTCCTGCCTAAAGTTGCTGCGGTTGTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC