Sequence
atgc intronic sequence ATGC exonic sequence...agctaattttttaatataagcctctttgttttgttttgtttgtattttgttccccccttcttttaactctctagtgtttcctgttctttgagtaatgcagACGAAAATCCTCCCTGCTAAATATGTAATGAAAACAGATGATGATGCTTTTGTTAGGATTGATGAAGTTCTCTCAAGTCTTAAAGGAAAGCCATCTAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g22550.1 (Oryza sativa), 3'ss of exon 4
-agctaattttttaatataagcctctttgttttgttttgtttgtattttgttccccccttcttttaactctctagtgtttcctgttctttgagtaa-tgcagACGAAAATCCTCCCTGCTAAATATGTAATGAAAACAGATGATGATGCTTTTGTTAGGATTGATGAAGTTCTCTCAAGTCTTAAAGGAAAGCCATCTAATG
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catacaccttcatggatgtagcacctcacaaatccctaatatgagctatag--caaatgtatgcgcatcctaaacttatatttgccttttgccaatctgcagACCAAAGTTGTTCCTGCAAAGTACATCATGAAAACAGATGATGATGCTTTTGTTAGGATTGATGAAGTCATCTCAAGCCTGAAGAAGAGTGACCCTCATG
upper sequence: Vv05s0020g00400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G160958_T01 (Zea mays), 3'ss of exon 4
---agctaattttttaatataagcctc-tttgttttgttttgtttgtattttgttcccccc-ttcttttaactctctagtgtttcctgttctttgagtaatgcagACGAAAATCCTCCCTGCTAAATATGTAATGAAAACAGATGATGATGCTTTTGTTAGGATTGATGAAGTTCTCTCAAGTCTTAAAGGAAAGCCAT-CTAATG
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cctttctaaattccatatatcagcagaactagaataaatatatgcagattgtattaaaaaaattaacatagccttct--ttttgtctattgct---attttgcagACAAAAATTGTTCCTGCAAAGTACATCATGAAAACGGATGACGATGCTTTTGTTAGGATCGATGAAGTGATCTCGAGCCT-AAAGAAGAGCAATTCCAATG
upper sequence: Vv05s0020g00400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G04230.1 (Glycine max), 3'ss of exon 4
---agctaattttttaatataagcctctttgttttgttttgtttgtattttgttccccccttcttttaactctctagtgtttcctgttctttgagtaatgcagACGAAAATCCTCCCTGCTAAATATGTAATGAAAACAGATGATGATGCTTTTGTTAGGATTGATGAAGTTCTCTCAAGTCTTAAAGGAAAGCCATCTAATG
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tctaatcaaatatatcatttaaaaattgtggtg--gctctggat-tctctcctttttattatctatgagttacttaataagctcatatttatcaaaattgcagACAAAAATCATCCCTTCTAAATACATCATGAAAACAGATGATGATGCCTTTGTTAGGATTGATGAAGTGCTTTCCAGCCTTAAAGGAAAGCCATCGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttccccccttcttttaactctctagtgtttcctgttctttgagtaatgcagACGAAAATCCTCCCTGCTAAATATGTAATGAAAACAGATGATGATGCTTTTGTTAGGATTGATGAAGTTCTCTCAAGTCTTAAAGGAAAGCCATCTAATG
ttttaac putative branch site (score: 2)
ttcttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agctaattttttaatataagcctctttgttttgttttgtttgtattttgttccccccttcttttaactctctagtgtttcctgttctttgagtaatgcagACGAAAATCCTCCCTGCTAAATATGTAATGAAAACAGATGATGATGCTTTTGTTAGGATTGATGAAGTTCTCTCAAGTCTTAAAGGAAAGCCATCTAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - -gcctctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcctgt