Sequence
atgc intronic sequence ATGC exonic sequencegtaactaatactaagaagaagaacgcagctccctattggctcttgatgcatgagcagagtgatcgaagctgacgaggtcgttcgttcttgcgttgcagACCCTTCACGGTTCCGGTTCACGCACCAGACGTCGTTCGTGAAGCGGCACCTGGGCCTCTCGAGCACCCCTGGAGTGAGATGGGTCGTGAGTACTCCGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G032219_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g29110.1 (Oryza sativa), 3'ss of exon 5
----------gtaactaatactaagaagaagaacgcagctccctattggctct-tgatgcatgagcagagtgatcgaagctgacgaggtcgttcgttcttgcgttgcagACCCTTCACGGTTCCGGTTCACGCACCAGACGTCGTTCGTGAAGCGGCACCTGGG---CCTCTCGAGCACCCCTGGAGTGAGATGGGTCGTGAGTACTCCGAC
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gtagtgaattaagaatctccctaactatttcatttcagaacctttatgataatgtcttgaaagaggaggagcaaatcagctgaaaaatatgatcgatcca----tgcagATCCTTCACGATTCAGGTTCACGCATCAGACGTCGTTCGTGAAGCGGCATCTGGGATCATTCTCAAGCACCCCTGGGCTCAGATGGATC--------------
upper sequence: GRMZM2G032219_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g03700.2 (Oryza sativa), 3'ss of exon 5
gtaactaatactaagaagaagaacgcagctccctat-tggctcttgatgcatgagcagagtgatcgaagctgacgaggtcgttcgttcttgcgttgcagACCCTTCACGGTTCCGGTTCACGCACCAGACGTCGTTCGTGAAGCGGCACCTGGGCCTCTCGAGCACCCCTGGAGTGAGATGGGTCGTGAGTACTCCGAC
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gtaattaaagaatctaactaatactaaccttcttacctgaaacttgaaacatgac---agcaa--agaactgataa-----ctcgtatcatccttgcagATCCTTCACGATTCCGGTTCACGCATCAGACATCGTTCGTGAAACGGCATCTGGGACTGTCAAGCACACCTGGGCTCAGATGGATT-------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatgcatgagcagagtgatcgaagctgacgaggtcgttcgttcttgcgttgcagACCCTTCACGGTTCCGGTTCACGCACCAGACGTCGTTCGTGAAGCGGCACCTGGGCCTCTCGAGCACCCCTGGAGTGAGATGGGTCGTGAGTACTCCGAC
agctgac putative branch site (score: 3)
ttcgttctt putative PPT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactaatactaagaagaagaacgcagctccctattggctcttgatgcatgagcagagtgatcgaagctgacgaggtcgttcgttcttgcgttgcagACCCTTCACGGTTCCGGTTCACGCACCAGACGTCGTTCGTGAAGCGGCACCTGGGCCTCTCGAGCACCCCTGGAGTGAGATGGGTCGTGAGTACTCCGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG