Sequence
atgc intronic sequence ATGC exonic sequencegtcaggcactaaacttccgatgctaaccatgcaaaaatttcaaaagaaattcatttttctataacatatgtttgcacccttaaaccatctttctttcagGTTGAGATTGGAAACTATGATTCTTTTTATGAGATGGGCATTGAGTTCTCCTCTGAGCAGGTGCTTACTAACCCGTCCTATTCAGAGCTACTAAATTTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G471253_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g49060.1 (Oryza sativa), 3'ss of exon 4
gtcaggcactaaacttccgatgctaaccatgcaaaaatttcaaaagaaattcatttttctataacatatgtttgcacccttaaaccatctttctttcagGTTGAGATTGGAAACTATGATTCTTTTTATGAGATGGGCATTGAGTTCTCCTCTGAGCAGGTGCTTACTAACCCGTCCTATTCAGAGCTACTAAATTTAC
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gtcaggctctaagtttt-gataagaagtatatgaa---tccgaaagaact--aatttccagtagt---tccttccgctcacaagcttttctccatgcagATTGAGATTGGAAACTATGATTCTTTTTATGACACAGGCATCGAATTCTCTTCTGAGAAG----------------------------------------
upper sequence: GRMZM2G471253_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA05G25910.1 (Glycine max), 3'ss of exon 4
gtcaggcactaaacttccgatgctaaccatgcaaaaatttcaaaagaaattcatttttctataacatatgt--ttgcacc---cttaaaccatctttctttcagGTTGAGATTGGAAACTATGATTCTTTTTATGAGATGGGCATTGAGTTCTCCTCTGAGCAGGTGCTTACTAACCCGTCCTATTCAGAGCTACTAAATTTAC
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gtttgacctt---cttgcctatctcatactccaaaaagttagatatttagatattaaaatggaccatgtgagattttacttaacatgattaatggcatcgacagGTTGAGATTGGAAACTATGATTCATTCTACGAGAAGGGAATATTTTTCACTCCAGAGAAG----------------------------------------
upper sequence: GRMZM2G471253_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G08850.1 (Glycine max), 3'ss of exon 4
gtcaggcactaaac----ttccgatgctaaccatgcaaaaatttcaaa---agaaattcattt---ttctataacatatgtttgcacccttaaaccatctttctttcagGTTGAGATTGGAAACTATGATTCTTTTTATGAGATGGGCATTGAGTTCTCCTCTGAGCAGGTGCTTACTAACCCGTCCTATTCAGAGCTACTAAATTTAC
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gtttgatcctattgcctattctcatactc-caaaacgaaagttagatatttagatattaaaatggaccttgtgagat-tttttcttgacatgattaatggcatcgacagGTTGAGATTGGAAACTATGATTCATTCTACGAGAAGGGAATAATTTTCACTCCAGAGAAG---------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaaattcatttttctataacatatgtttgcacccttaaaccatctttctttcagGTTGAGATTGGAAACTATGATTCTTTTTATGAGATGGGCATTGAGTTCTCCTCTGAGCAGGTGCTTACTAACCCGTCCTATTCAGAGCTACTAAATTTAC
ctataac putative branch site (score: 3)
ccatctttctttc putative PPT
atttttctataacata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcaggcactaaacttccgatgctaaccatgcaaaaatttcaaaagaaattcatttttctataacatatgtttgcacccttaaaccatctttctttcagGTTGAGATTGGAAACTATGATTCTTTTTATGAGATGGGCATTGAGTTCTCCTCTGAGCAGGTGCTTACTAACCCGTCCTATTCAGAGCTACTAAATTTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT