Sequence
atgc intronic sequence ATGC exonic sequence...ttgcccttttggcaaaagcttgcataactcctgtagaaagtttctgattttacccccttatatgtcatgtaaatgctacaactgcattcctttttaatagGATGCTAGTATATGAGTTCGTGAACAATGGTAATTTAGAGCAGTGGCTTCATGGAGCTATGCATCAGCGTGGTGTTTTTAGCTGGGAAAATCGCATGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G017386_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g44110.1 (Oryza sativa), 3'ss of exon 4
ttgcccttttggcaaaagcttgcataactcctgtagaaagtt----tctgattttaccccct---------tatatgtcatgtaaatgctacaactgcattcctttttaatagGATGCTAGTATATGAGTTCGTGAACAATGGTAATTTAGAGCAGTGGCTTCATGGAGCTATGCATCAGCGTGGTGTTTTTAGCTGGGAAAATCGCATGAAG
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-----------aaacaaatttgcatcacctgtttagaaatttgtggttgcatcttaggctctaggatatattgtatatcacagaaataatatgacaatggt--tttttaatagGATGTTGGTGTATGAATTTGTGAATAACGGTAACTTGGAGCAGTGGCTTCATGGAGCTATGCGCCAGCATGGTGTTTTTAGCTGGGAAAATCGTATGAAG
upper sequence: GRMZM2G017386_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 4
----------------------------------------------------------------------------------------------ttgcccttttggcaaaagcttgcataactcctgtagaaagtttctgattttaccc-ccttatatgtcatgtaaatg-ctacaactgcattcctttttaata--gGATGCTAGTATATGAGTTCGTGAACAATGGTAATTTAGAGCAGTGGCTTCATGGAGCTATGCATCAGCGTGGTGTTTTTAGCTGGGAAAATCGCATGAAG
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gtaagatttgttcactttttattgatgtggtaatttatttcattcctattcatttggcatgttggatgttattattatttattgtcatgatgaagtactttttcgttgaaaaacaaagta-cttttccaattcttttgcaatcttgtcgatctgatttgcctgggatgtggttatgtacttattattctttaatatagGATGCTGGTGTATGAATATGTGAACAATGGCAACTTAGAACAGTGGCTTCATGGAGCTATGCGCCAATATGGCAACCTTACTTGGGAGGCCCGCATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattttacccccttatatgtcatgtaaatgctacaactgcattcctttttaatagGATGCTAGTATATGAGTTCGTGAACAATGGTAATTTAGAGCAGTGGCTTCATGGAGCTATGCATCAGCGTGGTGTTTTTAGCTGGGAAAATCGCATGAAG
ttctgat putative branch site (score: 3)
ctgcattccttttt putative PPT
attcctttttaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgcccttttggcaaaagcttgcataactcctgtagaaagtttctgattttacccccttatatgtcatgtaaatgctacaactgcattcctttttaatagGATGCTAGTATATGAGTTCGTGAACAATGGTAATTTAGAGCAGTGGCTTCATGGAGCTATGCATCAGCGTGGTGTTTTTAGCTGGGAAAATCGCATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT