Sequence
atgc intronic sequence ATGC exonic sequence...gtgcagatggagcttttgcttttctttgttgagatcatattgtcagaagactctcttttgtcagtatgacatactaaaatattgtaatttcatgtaacagCAGAGAAGTCAACAGAAAATGGTAGTAGGAATCAACCGGTGGCATTGGTAGTCTCAGGTTCTACAACTACTAGTAATGCTGAAAGCAGTTCATCTGCATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G132184_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 3'ss of exon 1
gtgcagat-ggagcttttgcttttctttgttga-gatcatattgtcagaagactctcttttgtcagtatgacatactaaaa-tattgta-atttcatgtaacagCAGAGAAGTCAACAGAAAATGGTAGTAGGAATCAACCGGTGGCATTGGTAGTCTCAGGTTCTACAACTACTAGTAATGCTGAAAGCAGTTCATCTGCATC
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atctgaattagtgttgtggggtttatttattgttgaggagatggtctttcgtttctcatt----agtatgccatattaaaactgttatccatttcatggaacagCAGAAAAGTCAACCGAAAATGGTAGCAGGAACCATCCAGTTGTATCAGTAGTCTCAGGCTCAACAACTACTAGTAATGCTGAGAGCAGTTCATCAGCATC
upper sequence: GRMZM2G132184_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA02G02570.1 (Glycine max), 3'ss of exon 1
gtgcagatggagcttttgcttttctttgttgagatc-atattgtcagaag--actctcttttgtcagtatgacatactaaaatatt---------gtaatttcatgt-aacagCAGAGAAGTCAACAGAAAATGGTAGTAGGAATCAACCGGTGGCATTGGTAGTCTCAGGTTCTACAACTACTAGTAATGCTGAAAGCAGTTCATCTGCATC
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----------cttatttccttatctattctaaaacctataatgcatgatgctatttttactgcttatcctaatactttttattttccctctcttggtggctttccattagCTGAAAGTAAATCAACTAATGATACTAGTAGAGACCAACCAACAGCCCCAGCAGTCTC---TTCTACAACCACTAGTAATGCTGAAAGCAATTCATCATCCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagactctcttttgtcagtatgacatactaaaatattgtaatttcatgtaacagCAGAGAAGTCAACAGAAAATGGTAGTAGGAATCAACCGGTGGCATTGGTAGTCTCAGGTTCTACAACTACTAGTAATGCTGAAAGCAGTTCATCTGCATC
tactaaa putative branch site (score: 1)
atactaaaatattgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcagatggagcttttgcttttctttgttgagatcatattgtcagaagactctcttttgtcagtatgacatactaaaatattgtaatttcatgtaacagCAGAGAAGTCAACAGAAAATGGTAGTAGGAATCAACCGGTGGCATTGGTAGTCTCAGGTTCTACAACTACTAGTAATGCTGAAAGCAGTTCATCTGCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- gcagatg
- - - - - - -ttttgct
- - - - - - - - - - - - tttgttg