Sequence
atgc intronic sequence ATGC exonic sequencegtatgtacatatcctatgactcccttttgttgtctctgccccctcaattggttgctctttgatcactagagttttgcagAACCTAGAACTGAAGAAAACAAATGATGAGAAAAAGGCTGCTATGGCTGCTCAGTTTGCGGCGGAAGCAACACTACGAAGAGTACATGGAGCTCAGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G832989_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g50320.2 (Oryza sativa), 3'ss of exon 3
gtatgtacatatcctatgactcccttttgttgtctctgccccctcaat--tggttgctctttgatcactagagttttgcagAACCTAGAACTGAAGAAAACAAATGATGAGAAAAAGGCTGCTATGGCTGCTCAGTTTGCGGCGGAAGCAACACTACGAAGAGTACATGGAGCTCAGAAAG
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----gtatctatctttatactttttaaagttgtttctgcccccctctttttgattgctccctgatggagaacattttgcagAATCTAGAACTCAAGAAAACAAATGATGAGAAAAAGGCGGCTATGGCTGCTCAGTTTGCAGCAGAAGCAACTCTGCGAAGAGTGCATGCAGCCCAAAAAG
upper sequence: GRMZM5G832989_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT1G68060.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgtacatatcctatgactcccttttgttgtctctgccccctcaattggttgctctttgatcactaga-gttttgcagAACCTAGAACTGAAGAAAACAAATGATGAGAAAAAGGCTGCTATGGCTGCTCAGTTTGCGGCGGAAGCAACACTACGAAGAGTACATGGAGCTCAGAAAG
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----gtatgtatcaaa-atctccctccttacgatcatg---atttggctggata---tctgattatgaactatgttgcagAATCTAGAAATCAAGAAGATCAATGAGGAGAAGAAGGCTTCCATGGCTGCTCAGTTTGCTGCTGAAGCTACCTTAAGAAGGGTCCATGCTGCTCAAAAGG
upper sequence: GRMZM5G832989_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S136_188V6.1 (Physcomitrella patens), 3'ss of exon 3
-------gtatgtacatatcctatg---actcccttttgttgtctctgccccctcaattggttgctctttgatcactagagttt------------tgcagAACCTAGAACTGAAGAAAACAAATGATGAGAAAAAGGCTGCTATGGCTGCTCAGTTTGCGGCGGAAGCAACACTACGAAGAGTACATGGAGCTCAGAAAG
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gattctcgcat-tttttgtcttatgtggacgtcgtttctttgtgctaaaattttaagttgtttctttgttacttatcagtatttggggggtgtttttgcagAACCTTGAATTGAAGAAGCTCAATGACGAGAAGAAAGCAGCTCTGGCCGCCCAGTTTGCAGCGGAGGCAACTCTGCGAAGGGTGCATGCAGCTCAGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgttgtctctgccccctcaattggttgctctttgatcactagagttttgcagAACCTAGAACTGAAGAAAACAAATGATGAGAAAAAGGCTGCTATGGCTGCTCAGTTTGCGGCGGAAGCAACACTACGAAGAGTACATGGAGCTCAGAAAG
ctttgat putative branch site (score: 5)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtacatatcctatgactcccttttgttgtctctgccccctcaattggttgctctttgatcactagagttttgcagAACCTAGAACTGAAGAAAACAAATGATGAGAAAAAGGCTGCTATGGCTGCTCAGTTTGCGGCGGAAGCAACACTACGAAGAGTACATGGAGCTCAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA