Sequence
atgc intronic sequence ATGC exonic sequence...tactatttagctgtaaagtgaacttttctctttcattcttctcttggaatagtaggcgccatgacttatattttttcatatccatatctcttaattgcagGTATATTGACAGTGCCGGCCTAAGTGGTCCCCTACCGTCATCGTTTTCTAGACTAACAAGAATGAAGACACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G155837_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g52600.1 (Oryza sativa), 3'ss of exon 6
-tac-tatttagctgtaaagt-gaacttttctctttcattcttctc------ttggaatagtaggcgccatgactta-tattttttcatatccatatctcttaattgcagGTATATTGACAGTGCCGGCCTAAGTGGTCCCCTACCGTCATCGTTTTCTAGACTAACAAGAATGAAGACACT
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gtacgtttctagttgggacttcgtttttcttttttttggtctacctaaccattctgattcttggactactcagctcaatgtttgctgctactcttatctctcaattgcagGTACATTGACAGTGCTGGCTTAAGTGGTCCACTACCATCATCATTTTCCAAGCTTACAAGAATGCAAACATT
upper sequence: GRMZM2G155837_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g52606.2 (Oryza sativa), 3'ss of exon 5
--------tactatttagctgtaaa-gtgaacttttctctttcattcttctcttggaatagtaggcgccatgacttatattttttcatatccatatctcttaattgcagGTATATTGACAGTGCCGGCCTAAGTGGTCCCCTACCGTCATCGTTTTCTAGACTAACAAGAATGAAGACACT
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gtgcgtttaactaattatttgtcgctatgtttttttttatcgaaccattttattttcttgg--actactgagcctaacgtgttctgctatttgcatctctcaattgcagGTATATTGACAGTTCTGGCTTAAGTGGAGCACTACCATCATCGTTTGCCAATCTTACAAGAATGAAAATATT
upper sequence: GRMZM2G155837_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g52614.1 (Oryza sativa), 3'ss of exon 6
tactatttagctgtaaagtgaacttttctctttcattcttctcttggaatagtaggc-gccatga---cttatattttttcatatcc---atatctcttaattgcagGTATATTGACAGTGCCGGCCTAAGTGGTCCCCTACCGTCATCGTTTTCTAGACTAACAAGAATGAAGACACT
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----gtgcgtttctatatgggattctgttttgctttttgcttaccaaagtaccaaaccattctgttttcttggactaaactaaatgttgggtttctcttaattgtagGTACATTGACAGTGCTGGCTTAAGTGGTCCGTTACCATCATCATTGTCCAAGCTTACAAGAATGCAAATATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaatagtaggcgccatgacttatattttttcatatccatatctcttaattgcagGTATATTGACAGTGCCGGCCTAAGTGGTCCCCTACCGTCATCGTTTTCTAGACTAACAAGAATGAAGACACT
tcttaat putative branch site (score: 3)
tatctctt CT-rich tract
ttatattttttcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactatttagctgtaaagtgaacttttctctttcattcttctcttggaatagtaggcgccatgacttatattttttcatatccatatctcttaattgcagGTATATTGACAGTGCCGGCCTAAGTGGTCCCCTACCGTCATCGTTTTCTAGACTAACAAGAATGAAGACACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA