Sequence
atgc intronic sequence ATGC exonic sequence...ttctatttggtatttccagaagcagatctttgcttctgtcttgttactagctactagacccaagtactagattttacctgattttttctttctttaccagAATGGATGAAGCAAGACAACAACTGTCCAGGAAAATTCCACTTCCATCAAGCCAGATTAATCCATATAGGATGATTATCATTATTCGGCTTGTGGTTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G025231_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g24190.2 (Oryza sativa), 3'ss of exon 1
--------------------------------ttctatttggtatttccagaagcagatc--tttgcttctgtcttgttact--agctactagacccaagtactagatt---ttacctgattttttctt-tctttaccagAATGGATGAAGCAAGACAACAACTGTCCAGGAAAATTCCACTTCCATCAAGCCAGATTAATCCATATAGGATGATTATCATTATTCGGCTTGTGGTTTTG
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gtatgtgattgcatgaatgccaattttttaaatattttctaagaataaccgaaatgtattcgtttatttgtattttttagttcaagaatttttcgtttggtactgatccgaattaccaattgttaactgatttttaccagAATGGATGAAGCTAGGCAGCCATTGTCCAGAAAAGTCCCAATTCCTTCAAGTCAGATTAACCCCTATAGAATGGTTATCATAATTCGGCTGGTGGTTTTG
upper sequence: GRMZM2G025231_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g24190.1 (Oryza sativa), 3'ss of exon 5
--------ttctatttggtatttccagaagcagatctttgcttctgt-cttgttactagctactagacccaagtactagattttacctgattttttctttctttaccagAATGGATGAAGCAAGACAACAACTGTCCAGGAAAATTCCACTTCCATCAAGCCAGATTAATCCATATAGGATGATTATCATTATTCGGCTTGTGGTTTTG
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aagaataaccgaaatgtattcgtttatttgtattttttagttcaagaatttttcgtttggtactgatccgaattaccaattgttaactgattttt---------accagAATGGATGAAGCTAGGCAGCCATTGTCCAGAAAAGTCCCAATTCCTTCAAGTCAGATTAACCCCTATAGAATGGTTATCATAATTCGGCTGGTGGTTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actagctactagacccaagtactagattttacctgattttttctttctttaccagAATGGATGAAGCAAGACAACAACTGTCCAGGAAAATTCCACTTCCATCAAGCCAGATTAATCCATATAGGATGATTATCATTATTCGGCTTGTGGTTTTG
acctgat putative branch site (score: 4)
ttttacctgatttttt CT-rich tract
attttttctttcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctatttggtatttccagaagcagatctttgcttctgtcttgttactagctactagacccaagtactagattttacctgattttttctttctttaccagAATGGATGAAGCAAGACAACAACTGTCCAGGAAAATTCCACTTCCATCAAGCCAGATTAATCCATATAGGATGATTATCATTATTCGGCTTGTGGTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG