Sequence
atgc intronic sequence ATGC exonic sequencegttcgtggatttcgatgaagtgttttgtgttcttccccaccctggatttttgggtgctttatcgattgagcatttccgggggtttttggtttgctgcagTGGAGCAGTACCCGTCGGAAGCTATGCGGCTGGAGCTGTCGGCGAAGATAGGGCTGTCGGACAGGCAGCTGCAAATGTGGTTCTGCCACCGCCGCCTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G159357_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g48170.1 (Oryza sativa), 3'ss of exon 1
gttcgtggatttcgatg--------aagtgttttgtgttc------ttccccaccctggatttttgggtgctttatcga---ttgagcatttccgggggt--ttttggtttgctgcagTGGAGCAGTACCCGTCGGAAGCTATGCGGCTGGAGCTGTCGGCGAAGATAGGGCTGTCGGACAGGCAGCTGCAAATGTGGTTCTGCCACCGCCGCCTCAA
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gtgcgtggattctgatggttttgcgaggctttggaagtttggagaattttttttggaggatttttgggtggggaattgaggttttggtgtttggggatgtgattttggtttggtgcagTGGAGCAGTACCCGTCGGAGACCTTGCGGGCGGAGCTGTCCGCGAAGATAGGCTTGTCAGACAGGCAGCTGCAAATGTGGTTCTGTCACCGGCGGCTGAA
upper sequence: GRMZM2G159357_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G30860.1 (Glycine max), 3'ss of exon 1
------gttcgtggatttcgatgaagtgttttgtgttcttccccaccctggatttttggg-tgctttatcgattgagcatttccggg----ggtttttggtttgctgc----agTGGAGCAGTACCCGTCGGAAGCTATGCGGCTGGAGCTGTCGGCGAAGATAGGGCTGTCGGACAGGCAGCTGCAAATGTGGTTCTGCCACCGCCGCCTCAA
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gtttgttatcgttaacctttttttattttattttattttttttcttgttcaatttctaggcttttttattgttcacttttttttttgttcaaattttttgtttttggtttttagTTGAGAATTACCCGTCGGAGACTATGAGGGTGGAGTTGTCGGAGAAGTTGGGGTTGTCGGATCGGCAGTTGCAGATGTGGTTCTGTCACCGGCGGTTGAA
upper sequence: GRMZM2G159357_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ11353 (Selaginella moellendorffii), 3'ss of exon 1
--------------gttcgtggatttcgatgaagtgttttgtgttcttccccaccctggatttttgggtg------ctttatcgattgagcat-ttccgggggtttttggtttgctgcagTGGAGCAGTACCCGTCGGAAGCTATGCGGCTGGAGCTGTCGGCGAAGATAGGGCTGTCGGACAGGCAGCTGCAAATGTGGTTCTGCCACCGCCGCCTCAA
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gtgagtgattcccctcccctcgctctcgatcga----ttcgtgcttcttcctgtggtggattgattggttttctctcttttttttttgtgtgtgttcttcgtgttcttcgtgctgtttagAGGACAAGTACCCCTCCGAGGTGGTCCGCGCGGAGCTCTCCACGAAATTGAGCCTCACGGACAGGCAGCTCCAGATGTGGTTCTGCCACCGGCGGCTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttttgggtgctttatcgattgagcatttccgggggtttttggtttgctgcagTGGAGCAGTACCCGTCGGAAGCTATGCGGCTGGAGCTGTCGGCGAAGATAGGGCTGTCGGACAGGCAGCTGCAAATGTGGTTCTGCCACCGCCGCCTCAA
tttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcgtggatttcgatgaagtgttttgtgttcttccccaccctggatttttgggtgctttatcgattgagcatttccgggggtttttggtttgctgcagTGGAGCAGTACCCGTCGGAAGCTATGCGGCTGGAGCTGTCGGCGAAGATAGGGCTGTCGGACAGGCAGCTGCAAATGTGGTTCTGCCACCGCCGCCTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC