Sequence
atgc intronic sequence ATGC exonic sequencegtgagcgcccccgcgtggttcgattcgtcgtgttttcttgaacttgcgtgaaggcccgcgctcacgcgtcgatcgttgtgccgcagGATGTTCAAGGAATTCCACCACCCGGACGAGAAGCAGCGCGCGCAGCTGAGCAGGCAGCTGGGCCTGGACCCGCGGCAGGTCAAGTTCTGGTTCCAGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AC235534.1_FGT007 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g48070.1 (Oryza sativa), 3'ss of exon 2
------gtgagcgcccccgcgtggttcgattcgtcgtgttttcttgaacttgcgtgaaggcccgcgctcacgcgtcgatcgttgt-----gccgcagGATGTTCAAGGAATTCCACCACCCGGACGAGAAGCAGCGCGCGCAGCTGAGCAGGCAGCTGGGCCTGGACCCGCGGCAGGTCAAGTTCTGGTTCCAGAAC
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gtaagcgcgcccccacccacgaacaacgattcgttgcattctcctgtgcttggctgcttgctttggctcatgcatggatactggctcatcggtgcagGATGTTCAAGGAATGCCCCCACCCAGACGAGAAGCAGCGCGCCGAGCTGAGCAAGCGGCTCGGCCTCGAACCCCGGCAGGTCAAGTTCTGGTTCCAGAAT
upper sequence: AC235534.1_FGT007 (Zea mays), 3'ss of exon 2
lower sequence: EFJ37532 (Selaginella moellendorffii), 3'ss of exon 1
gtgagcgcccccgcgtggttcgattcgtcgtgttttcttgaacttgcgtgaaggcccgcgctcacgcgtcgatcgttgtgccgcagGATGTTCAAGGAATTCCACCACCCGGACGAGAAGCAGCGCGCGCAGCTGAGCAGGCAGCTGGGCCTGGACCCGCGGCAGGTCAAGTTCTGGTTCCAGAAC
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-----------------------------gtaagtactgcaagccgagagcatg---atgagaacttatctttcttcgtgcc--agGTTGTTCAAGGAGTGTCCTCATCCCGACGATAAGCAGCGCCAGGAGCTGAGCCGGGAGCTAGGACTGGAGCCTCGGCAAGTCAAGTTCTGGTTCCAGAAT
upper sequence: AC235534.1_FGT007 (Zea mays), 3'ss of exon 2
lower sequence: EFJ34024 (Selaginella moellendorffii), 3'ss of exon 1
gtgagcgcccccgcgtggttcgattcgtcgtgttttcttgaacttgcgtgaaggcccgcgctcacgcgtcgatcgttgtgccgcagGATGTTCAAGGAATTCCACCACCCGGACGAGAAGCAGCGCGCGCAGCTGAGCAGGCAGCTGGGCCTGGACCCGCGGCAGGTCAAGTTCTGGTTCCAGAAC
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-----------------------------gtaagtactacaagccgagagcatg---atgagaacttatctttcttcgtgcc--agGTTGTTCAAGGAGTGTCCTCATCCCGACGATAAGCAGCGCCAGGAGCTGAGCCGGGAGCTAGGACTGGAGCCTCGGCAAGTCAAGTTCTGGTTCCAGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttcttgaacttgcgtgaaggcccgcgctcacgcgtcgatcgttgtgccgcagGATGTTCAAGGAATTCCACCACCCGGACGAGAAGCAGCGCGCGCAGCTGAGCAGGCAGCTGGGCCTGGACCCGCGGCAGGTCAAGTTCTGGTTCCAGAAC
cgctcac putative branch site (score: 3)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcgcccccgcgtggttcgattcgtcgtgttttcttgaacttgcgtgaaggcccgcgctcacgcgtcgatcgttgtgccgcagGATGTTCAAGGAATTCCACCACCCGGACGAGAAGCAGCGCGCGCAGCTGAGCAGGCAGCTGGGCCTGGACCCGCGGCAGGTCAAGTTCTGGTTCCAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG