Sequence
atgc intronic sequence ATGC exonic sequencegttagttttttagtttcttaagctttgtatttttaaagggtgtgggtttgtttgtttatttcttgtttcttttttattttgttttaacattcccgacaatatgagagacatgagatgtaatttctttttactatagGAGTCAAACAACTAAGGGAATTTGGATGGCAAATTGTGTTGGTATTGAGCCTTTAACAATTGCCATGGATTTAGAGGGCACTGATGGGAGGGAAAGAGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0125g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G02490.1 (Glycine max), 3'ss of exon 2
gttagttttttagtttcttaagctttgtatttttaaagggtgtgggtttgtttgtttatttcttgtttctttt--ttattttgttttaacattcccgacaatatgagagacatgagatgtaatttctttttactatagGAGTCAAACAACTAAGGGAATTTGGATGGCAAATTGTGTTGGTATTGAGCCTTTAACAATTGCCATGGATTTAGAGGGCACTGATGGGAGGGAAAGAGGC
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gttcggttctgaaattattggactgt---tgtttggggcagagaaaactgaatgtctttttgacattcttgctggctgttatgttttagttt-------agtttattgaactcgtaattgagtatcatattgttgcagATCTCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGCACTGATGGAAGGGAGAGGGGC
upper sequence: Vv00s0125g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G13380.2 (Glycine max), 3'ss of exon 2
gttagttttttagtttcttaagctttgtatttttaaagggtgtgggtttgtttgtttatttcttgtttcttttttattttgttttaacattcccgacaatatgagagacatgagatgtaatttctttttactatagGAGTCAAACAACTAAGGGAATTTGGATGGCAAATTGTGTTGGTATTGAGCCTTTAACAATTGCCATGGATTTAGAGGGCACTGATGGGAGGGAAAGAGGC
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gtcggtttctgaaattattgagatgt-tgttttgggcagagaaaactgaatgtctttttgacgttcttggtggcagttatgttttagactttt----agtttattgaacatgtaattgagtatcatgttgttgcagATCGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGC
upper sequence: Vv00s0125g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G45160.1 (Arabidopsis thaliana), 3'ss of exon 3
gttagttttttagtttcttaagctttgtatttttaaagggtgtgggtttgtttgtttatttcttgtttcttttttattttgttttaacattcccgacaatatgagagacatgagatgtaatttctttttactat-agGAGTCAAACAACTAAGGGAATTTGGATGGCAAATTGTGTTGGTATTGAGCCTTTAACAATTGCCATGGATTTAGAGGGCACTGATGGGAGGGAAAGAGGC
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----------------------gttagtgattgtcatttgtcaattattgttt-tttataatct-ttttgtggcaatgccacttttggggttgaaattgggttgactttgtaaattactcttcattttcattttcagGAGTCAAACAACTAAAGGTATTTGGATGGCTAGGTGTGTTGGTATTGAGCCTTTCACAATTGCTATGGATTTGGAGGGTACTGATGGGAGAGAAAGAGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttaacattcccgacaatatgagagacatgagatgtaatttctttttactatagGAGTCAAACAACTAAGGGAATTTGGATGGCAAATTGTGTTGGTATTGAGCCTTTAACAATTGCCATGGATTTAGAGGGCACTGATGGGAGGGAAAGAGGC
ttttaac putative branch site (score: 2)
tttctttttactat putative PPT
atgtaatttcttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttttttagtttcttaagctttgtatttttaaagggtgtgggtttgtttgtttatttcttgtttcttttttattttgttttaacattcccgacaatatgagagacatgagatgtaatttctttttactatagGAGTCAAACAACTAAGGGAATTTGGATGGCAAATTGTGTTGGTATTGAGCCTTTAACAATTGCCATGGATTTAGAGGGCACTGATGGGAGGGAAAGAGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG