Sequence
atgc intronic sequence ATGC exonic sequence...tcttctattagtactctgtgcttgttatatgttggataggattcatgacaatgagccactaatttctgaagttttccaagctaacctattttctttgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAATAGCTTGTGACCCCTTGACCCTTCAGAGGAAGCACGCTAGAATCGCTGACAAGAAGAAGAGGATCGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G048770_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g42950.1 (Oryza sativa), 3'ss of exon 5
-----tcttctattagtactctgtgcttgttatatgttggataggattcatgacaatgagccactaatttctgaagttttccaagctaacctattttctttgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAATAGCTTGTGAC-CCCTTGACCCTTCAGAGGAAGCACGCTAGAATCGCTGACAAGAAGAAGAGGATCGCT
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caccatattatattgt--ctgcatgtttgtcagttttcaagtcaaaat-atatcttccaggtagctttctgcttacctacctaa--tggtgttgttgtgttgcagGCAAGAAGGTGAGCAAGGCTCCTAAGATCCAGCGTCTTGTGACTCCCCTCACCCTCCAGAGGAAGCGTGCCAGAATCGCTGACAAGAAGAAGAGGATCGC-
upper sequence: GRMZM2G048770_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 5
tcttctattagtactctgtgcttgttatatgttggatag-gattcatgacaatgagccactaatttctgaagttttccaagctaacctattttctttgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAATAGCTTGTGACCCC-TTGACCCTTCAGAGGAAGCACGCTAGAATCGCTGACAAGAAGAAGAGGATCGCT
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-------gtgagacactgaacttgagaaatagtggtttctgaatcacacttgagaaataatgttttctgaaacttgtttcttctgtttggatttttgacagGCAAGGAAGTTAGCAAAGCCCCTAAGATCCAGAGGCTTGTGACCCCATTGACTCTTCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAAAATTGC-
upper sequence: GRMZM2G048770_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT5G10360.2 (Arabidopsis thaliana), 3'ss of exon 5
tcttctattagtactctgtgcttgttatat--gttggataggattcatgacaatgagccac-taatttctgaagttttccaagctaacctattttctt-tgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAATAGCTTGTGACCCC-TTGACCCTTCAGAGGAAGCACGCTAGAATCGCTGACAAGAAGAAGAGGATCGCT
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--acaaacaagaagggtaagaaaattagattcacttaaagagataattgaaaactgtttatacgattgatga--tttactaatatatgaggcttccatgtgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTGACTCCATTGACCCTCCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAGAATCGC-
upper sequence: GRMZM2G048770_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT5G10360.1 (Arabidopsis thaliana), 3'ss of exon 5
tcttctattagtactctgtgcttgttatatgttggataggattcatgacaatgagccac-taatttctgaagttttccaagctaacctattttctt-tgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAATAGCTTGTGACCCC-TTGACCCTTCAGAGGAAGCACGCTAGAATCGCTGACAAGAAGAAGAGGATCGCT
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-------------gtaagaaaattagattcacttaaagagataattgaaaactgtttatacgattgatga--tttactaatatatgaggcttccatgtgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTGACTCCATTGACCCTCCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAGAATCGC- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgacaatgagccactaatttctgaagttttccaagctaacctattttctttgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAATAGCTTGTGACCCCTTGACCCTTCAGAGGAAGCACGCTAGAATCGCTGACAAGAAGAAGAGGATCGCT
agctaac putative branch site (score: 2)
cctattttctttgc CT-rich tract
tattttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttctattagtactctgtgcttgttatatgttggataggattcatgacaatgagccactaatttctgaagttttccaagctaacctattttctttgcagGCAAGAATGTGAGCAAGGCACCTAAGATCCAATAGCTTGTGACCCCTTGACCCTTCAGAGGAAGCACGCTAGAATCGCTGACAAGAAGAAGAGGATCGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - tgcttgt
- - - - - - - - - - - - - -tatgttg
- - - - - - - - - - - - - - - - - - - - attcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - gccacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttctga