Sequence
atgc intronic sequence ATGC exonic sequencegtagaactctaagaactttcaagcaaaccatttgaaatttctcttgtttctatgacttgagttccttactagattcaattatttgtaccagGATTGCAGAAAAAGTAAATGAGAGGTGGGAGATTTGTGTGAGTCTGAGCGAAGGGCAGTTTCAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0064g00560.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g47150.1 (Oryza sativa), 3'ss of exon 2
gtagaactctaagaactttcaa-gcaaa-ccatttgaaatttctcttgtttctatgacttgagttccttactagattcaattattt---gtaccagGATTGCAGAAAAAGTAAATGAGAGGTGGGAGATTTGTGTGAGTCTGAGCGAAGGGCAGTTTCAACAG
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gtttgacagtagtttcttgcaacgcaaaattatttttggatgtccatgctcttatattgtttatttttttcctctttcgcatgtcttccatttcagTATTTCACAGAAAGTAAATGATCGGTGGGAGGTGTGTGTGAGTCTTAGCGAAGGGCAGTTTCAGCAG
upper sequence: Vv13s0064g00560.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G11610.1 (Glycine max), 3'ss of exon 2
gtagaactctaagaactttcaagc--aaaccatttgaaatttctcttgtttctatgacttgagttccttactagattcaattatttgtaccagGATTGCAGAAAAAGTAAATGAGAGGTGGGAGATTTGTGTGAGTCTGAGCGAAGGGCAGTTTCAACAG
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gtttgtctctatgaaatttgtttttggagccagtgtaatttcttctttcctttattacta----tgctaacttggttttgttgttgttaatagGATTCACGCAAAAGTAGGTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGATGGGCAGTTTCAACAG
upper sequence: Vv13s0064g00560.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G43170.1 (Glycine max), 3'ss of exon 2
gtagaactctaagaactttcaagcaaaccatttgaaatttctcttgtttctatgacttgagttccttactagattcaattatttgtaccagGATTGCAGAAAAAGTAAATGAGAGGTGGGAGATTTGTGTGAGTCTGAGCGAAGGGCAGTTTCAACAG
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gtttgtctctatgaaatgtttgtggagcta---gagttttttcttctttccttta------ttgctaat--ggttttgttaatgttaatagGATTCATGCAAAAGTAGGTGAAAGGTGGGAGATTTGCGTGAGTCTAAGTGACGGGCAGTTTCAACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttctcttgtttctatgacttgagttccttactagattcaattatttgtaccagGATTGCAGAAAAAGTAAATGAGAGGTGGGAGATTTGTGTGAGTCTGAGCGAAGGGCAGTTTCAACAG
tccttac putative branch site (score: 2)
tagattcaattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagaactctaagaactttcaagcaaaccatttgaaatttctcttgtttctatgacttgagttccttactagattcaattatttgtaccagGATTGCAGAAAAAGTAAATGAGAGGTGGGAGATTTGTGTGAGTCTGAGCGAAGGGCAGTTTCAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT