Sequence
atgc intronic sequence ATGC exonic sequencegtacatgttcaaggctagaatgattggcatgatagttgtttatttctctctaactgatcttatgttgaacgcctagGATCCTTCATATCTTGATGCTAGAGTTGATGAATTCTTCAAGATGTTTGAAAACAAAATCCATGAATTGTCAGACAAGGATTTTAAG
Basic information
species | Oryza sativa |
transcript | LOC_Os01g57082.1 |
intron # | 23 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g57082.1 (Oryza sativa), 3'ss of exon 23
lower sequence: GRMZM5G852779_T01 (Zea mays), 3'ss of exon 4
gtacatgttca---aggctaga------atgattggcatga--tagttgtttatttctctctaactgatcttatgttgaacgcctagGATCCTTCATATCTTGATGCTAGAGTTGATGAATTCTTCAAGATGTTTGAAAACAAAATCCATGAATTGTCAGACAAGGATTTTAAG-------------
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gtacacgttaacctagagtagtttttttatttttgaaaagaacttatggtacttgttgctcctgctggtattttgttgcatgcctagGATCCTTCGTATCTTGATGGTAGAGTTGATGAATTCTTCAAGATGTTTGAAAGCAAAATCTATGAACTCTCCGACAAGGACTTCAAGGTTAGTGTCTTTG
upper sequence: LOC_Os01g57082.1 (Oryza sativa), 3'ss of exon 23
lower sequence: GRMZM5G852779_T03 (Zea mays), 3'ss of exon 4
gtacatgttca---aggctaga------atgattggcatga--tagttgtttatttctctctaactgatcttatgttgaacgcctagGATCCTTCATATCTTGATGCTAGAGTTGATGAATTCTTCAAGATGTTTGAAAACAAAATCCATGAATTGTCAGACAAGGATTTTAAG
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gtacacgttaacctagagtagtttttttatttttgaaaagaacttatggtacttgttgctcctgctggtattttgttgcatgcctagGATCCTTCGTATCTTGATGGTAGAGTTGATGAATTCTTCAAGATGTTTGAAAGCAAAATCTATGAACTCTCCGACAAGGACTTCAAG
upper sequence: LOC_Os01g57082.1 (Oryza sativa), 3'ss of exon 23
lower sequence: GRMZM2G054905_T01 (Zea mays), 3'ss of exon 24
gtacatgttcaaggctagaatgattggcatgatagttgttt-atttct----------------------ctctaactgatcttatgttgaacgcctagGATCCTTCATATCTTGATGCTAGAGTTGATGAATTCTTCAAGATGTTTGAAAACAAAATCCATGAATTGTCAGACAAGGATTTTAAG
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gtacacacgtgaacccagagtagttttattttcttttgttttattttttaagaacctacagtagttgttactcctgctgatattttgttggatgcctagGATCCTTCATACCTCGATGTTAGAGTTGATGAGTTCTTTAAGATGTTTGAAAGCAAAATCTATGAACTCTCCGACAAGGATTTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattggcatgatagttgtttatttctctctaactgatcttatgttgaacgcctagGATCCTTCATATCTTGATGCTAGAGTTGATGAATTCTTCAAGATGTTTGAAAACAAAATCCATGAATTGTCAGACAAGGATTTTAAG
atagttgtttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacatgttcaaggctagaatgattggcatgatagttgtttatttctctctaactgatcttatgttgaacgcctagGATCCTTCATATCTTGATGCTAGAGTTGATGAATTCTTCAAGATGTTTGAAAACAAAATCCATGAATTGTCAGACAAGGATTTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG