Sequence
atgc intronic sequence ATGC exonic sequence...ctcttctatagtagtctgtgcttgttatatgttggataggattcatgataatgagccactaatttctgaagttttcaaagctaacctgttttctttgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAGCAGACAAGAAGAAGAGGATCGCTAAGAAGAAGTTTGAGGTTGAAGGGACAAAGAGACCACCGCAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G583235_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g42950.1 (Oryza sativa), 3'ss of exon 5
--ctcttctatagtagtctg--tgcttgttatatgttggataggattcatgataatgagccactaatttctgaagttttcaaagctaacctgttttctttgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAGCAGAC-AAGAAGAAGAGGATCGCTAAGAAGAAGTTTGA-GGTTGAAGGGACAAAGAGACCACCGCAGCAG
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caccatattatatt-gtctgcatgtttgtcagttttcaagtcaaaatatatcttccaggtagctttctgcttacctacctaatggtg--ttgttgtgtt-gcagGCAAGAAGGTGAGCAAGGCTCCTAAGATCCAGCGTCTTGTGACTCCCCTCACCCTCCAGAGGAAGCGTGCCAGAATCGCTGACAAGAAGAAGAGGATCGC--
upper sequence: GRMZM2G583235_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT5G10360.2 (Arabidopsis thaliana), 3'ss of exon 5
ctcttctatagtagtctgtgcttgttatatgttggataggattcatgataatgagccac-taatttctgaagttttcaaagctaacctgttttctt-tgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAGCAGACAAGAAGAAGAGGATCGCT----AAGAAGAAGTTTGAGGTTGAAGGGACAAAGA-GACCACCGCAGCAG
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acaaacaagaagggtaagaaaattagattcacttaaagagataattgaaaactgtttatacgattgatga--tttactaatatatgaggcttccatgtgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTGACTCCATTGACCCTCCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAGAATCGC-----
upper sequence: GRMZM2G583235_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT5G10360.1 (Arabidopsis thaliana), 3'ss of exon 5
ctcttctatagtagtctgtgcttgttatatgttggataggattcatgataatgagccac-taatttctgaagttttcaaagctaacctgttttctt-tgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAGCAGACAAGAAGAAGAGGATCGCT----AAGAAGAAGTTTGAGGTTGAAGGGACAAAGA-GACCACCGCAGCAG
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-------------gtaagaaaattagattcacttaaagagataattgaaaactgtttatacgattgatga--tttactaatatatgaggcttccatgtgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTGACTCCATTGACCCTCCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAGAATCGC----- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgataatgagccactaatttctgaagttttcaaagctaacctgttttctttgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAGCAGACAAGAAGAAGAGGATCGCTAAGAAGAAGTTTGAGGTTGAAGGGACAAAGAGACCACCGCAGCAG
agctaac putative branch site (score: 2)
cctgttttctttgc CT-rich tract
actaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcttctatagtagtctgtgcttgttatatgttggataggattcatgataatgagccactaatttctgaagttttcaaagctaacctgttttctttgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAGCAGACAAGAAGAAGAGGATCGCTAAGAAGAAGTTTGAGGTTGAAGGGACAAAGAGACCACCGCAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - tgcttgt
- - - - - - - - - - - - - -tatgttg
- - - - - - - - - - - - - - - - - - - - attcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - gccacta