Sequence
atgc intronic sequence ATGC exonic sequencegtccctgtccgggggagggcgatggcgagggcgtggatacgggggctgagaaggggctggagatcgcgaggctggggaccaatctgattcggttcatgctattttgctgtccagAGGGCTGTTCTTGAGCCAGCAATGCAAGGAAAAGACATAATTGGCCGTGCTCGAACAGGGACTGGGAAGACCCTGGCTTTTGGTATTCCTATCATGGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G407382_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g05050.3 (Oryza sativa), 3'ss of exon 1
gtccctgtccgggggagggcgatggcgagggcgtggatacgggggctgagaaggggctggagatcgcgaggctggggaccaatctgattcggttcatgcta--ttttgctgtccagAGGGCTGTTCTTGAGCCAGCAATGCAAGGAAAAGACATAATTGGCCGTGCTCGAACAGGGACTGGGAAGACCCTGGCTTTTGGTATTCCTATCATGGACA
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------------taatttgcaat----atgatttgcttggtgctcttgtcactctactttatttttcttttttttgcttttttatgtagtgatgtgttttatctttctctgtccagAGGGCTGTCCTTGATCCAGCAATGCAAGGCAAAGATATGATTGGACGTGCAAGAACTGGAACTGGGAAAACGTTGGCTTTTGGTATTCCTATCATGGACA
upper sequence: GRMZM2G407382_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
gtccctgtccgggggagggcgatggcgagggcgtggatacgggggctgaga----aggggctggagatcgcgaggctgggga--ccaatctgattcggttcatgctattttgctgtccagAGGGCTGTTCTTGAGCCAGCAATGCAAGGAAAAGACATAATTGGCCGTGCTCGAACAGGGACTGGGAAGACCCTGGCTTTTGGTATTCCTATCATGGACA
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-------------------tcatgttaattgttcacatttatttcttgatatgtcagtaactcaatatt-cggttttggagattccatttttcgtaaaaaaaaatttgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagatcgcgaggctggggaccaatctgattcggttcatgctattttgctgtccagAGGGCTGTTCTTGAGCCAGCAATGCAAGGAAAAGACATAATTGGCCGTGCTCGAACAGGGACTGGGAAGACCCTGGCTTTTGGTATTCCTATCATGGACA
atctgat putative branch site (score: 4)
ctatttt putative PPT
tatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccctgtccgggggagggcgatggcgagggcgtggatacgggggctgagaaggggctggagatcgcgaggctggggaccaatctgattcggttcatgctattttgctgtccagAGGGCTGTTCTTGAGCCAGCAATGCAAGGAAAAGACATAATTGGCCGTGCTCGAACAGGGACTGGGAAGACCCTGGCTTTTGGTATTCCTATCATGGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA