Sequence
atgc intronic sequence ATGC exonic sequence...cccttaactttttgttcatgaattattctaaattctgctcgttcagagagatcgtcagaccctatgccacacttgatgttttatttccttgttgagatagGTTTCGGAAGTAAGCTCAATTCTGGGTAGAGCTAGTACTGCTGGCCTTGGAAAAGCAGTGGAAGTGCTTGATACACTTGGCAGTAGCATGACAGATTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G148773_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g65330.2 (Oryza sativa), 3'ss of exon 1
cccttaactttt---tgttcatgaattattctaaattctgctcgttcagagagatcgtcagaccctatgccacacttgatgttttatttccttgttgagatagGTTTCGGAAGTAAGCTCAATTCTGGGTAGAGCTAGTACTGCTGGCCTTGGAAAAGCAGTGGAAGTGCTTGATACACTTGGCAGTAGCATGACAGATTTGA
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-cttcagctccacagtgtttatcgatgtttgcaatattt--cagaatgttgtttctgtgagaacataggtcatttttaatgtttgcttgccatgttgaaacagGTTTCAGAAGTAAGCTCAATTTTGGGGAGGGCTAGTACTGTTGGGCTTGGGAAAGCAGTGGAAGTGCTAGACACACTTGGTAGTAGCATGGCAAATTTGA
upper sequence: GRMZM2G148773_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT1G34320.1 (Arabidopsis thaliana), 3'ss of exon 2
cccttaactttttgttcatgaattattctaaattctgctcgttcagagagatcgtcagaccctatgccacacttgatgttttatttccttgttgag-atagGTTTCGGAAGTAAGCTCAATTCTGGGTAGAGCTAGTACTGCTGGCCTTGGAAAAGCAGTGGAAGTGCTTGATACACTTGGCAGTAGCATGACAGATTTGA
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-------------gtatataaagaaatgttaa----gct-gttgtgtg---ttgttagttctgagttcaaatttattatactaaggtgtttttgtttatagGTTTCGGAAGTAAGCTCTCTTTTGGGTAGGGCTGGTACTATGGGACTTGGTAAAGCTGTGGATGTGTTGGATACACTCGGGAGTAGTATGACGAATCTGA
upper sequence: GRMZM2G148773_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 1
----cccttaactttttgttcatgaattattctaaattctgctcgttcagagagatcgtcagaccctatgccacacttgatgttttatttccttgttgagatagGTTTCGGAAGTAAGCTCAATTCTGGGTAGAGCTAGTACTGCTGGCCTTGGAAAAGCAGTGGAAGTGCTTGATACACTTGGCAGTAGCATGACAGATTTGA
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acagaatgatattcattattatattggtaatgtgatgttgaattgtcttaatggatcaatatttttagtagcac-tttaatg---gattgatttggtataccagGTTTCAGAAGTGAGCTCACTTTTGGGCAGGGCTGGTACTGCTGGGCTTGGGAAGGCAGTTGAAGTTTTGGACACACTTGGTAGTAGCATGACAAATTTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagagatcgtcagaccctatgccacacttgatgttttatttccttgttgagatagGTTTCGGAAGTAAGCTCAATTCTGGGTAGAGCTAGTACTGCTGGCCTTGGAAAAGCAGTGGAAGTGCTTGATACACTTGGCAGTAGCATGACAGATTTGA
acttgat putative branch site (score: 5)
ttttatttccttgtt CT-rich tract
ttgatgttttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cccttaactttttgttcatgaattattctaaattctgctcgttcagagagatcgtcagaccctatgccacacttgatgttttatttccttgttgagatagGTTTCGGAAGTAAGCTCAATTCTGGGTAGAGCTAGTACTGCTGGCCTTGGAAAAGCAGTGGAAGTGCTTGATACACTTGGCAGTAGCATGACAGATTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG