Sequence
atgc intronic sequence ATGC exonic sequencegtatggtacatgacaccaagggattcaaacacttgtttttttttcttcccctggatactaaacggggtgatgttttcagGTCATTGATCTGGCAAGATTGAATCATGAGAACATAGCAAAGTTCTTAGGGTACTGCAGGGAGAGTGATCCATTCTCTCGGATGCTAGTCTTCGAGTACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G119759_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os04g58700.1 (Oryza sativa), 3'ss of exon 9
gtatggtacatgacaccaagggattcaaacacttgtttttttttcttcccctggatactaaacggggtgatgttttcagGTCATTGATCTGGCAAGATTGAATCATGAGAACATAGCAAAGTTCTTAGGGTACTGCAGGGAGAGTGATCCATTCTCTCGGATGCTAGTCTTCGAGTACG
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-----gtaaagcttagcaaa--attctgctgtgagaacagtatgttgtcccacaatattaatgggtgtaaa--ttttagGTTATTGACCTGGCAAGGTTGAATCATGAGAACATAGCAAAATTTCTGGGCTATTGCAGAGAAAGTGACCCATTCTCCAGGATGCTAGTGTTTGAATACG
upper sequence: GRMZM2G119759_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os04g58700.2 (Oryza sativa), 3'ss of exon 9
gtatggtacatgacaccaagggattcaaacacttgtttttttttcttcccctggatactaaacggggtgatgttttcagGTCATTGATCTGGCAAGATTGAATCATGAGAACATAGCAAAGTTCTTAGGGTACTGCAGGGAGAGTGATCCATTCTCTCGGATGCTAGTCTTCGAGTACG---------------------------------
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-----gtaaagcttagcaaa--attctgctgtgagaacagtatgttgtcccacaatattaatgggtgtaaa--ttttaggttattgacctggcaaggttgaatcatgagaacatagcaaaatttctgggctattgcagAGAAAGTGACCCATTCTCCAGGATGCTAGTGTTTGAATACGCATCAAACGGGACCCTGTTTGAGCACCTACACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaacacttgtttttttttcttcccctggatactaaacggggtgatgttttcagGTCATTGATCTGGCAAGATTGAATCATGAGAACATAGCAAAGTTCTTAGGGTACTGCAGGGAGAGTGATCCATTCTCTCGGATGCTAGTCTTCGAGTACG
tactaaa putative branch site (score: 1)
tgttttc putative PPT
ttgtttttttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggtacatgacaccaagggattcaaacacttgtttttttttcttcccctggatactaaacggggtgatgttttcagGTCATTGATCTGGCAAGATTGAATCATGAGAACATAGCAAAGTTCTTAGGGTACTGCAGGGAGAGTGATCCATTCTCTCGGATGCTAGTCTTCGAGTACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG