Sequence
atgc intronic sequence ATGC exonic sequencegtacttaagcatggtctgcttgataatactctactttgttatgtcaatgaatatgctgtggcttataaagaacatatgtcttgtggcttgatgcagTAAGCTTATCAACGTTGCAGTGCCAGGGACAATAGATGAACGAGCTATTAACACCAAACGGGTACTAAATCCATGGGAGAGGAATGAAAACCATACCCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01440.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G556845_T01 (Zea mays), 3'ss of exon 3
-----------------------gtacttaagcatggt--ctgcttgataatactctactttgttatgtcaatgaatatg-ctgtggcttataaagaacatatgtcttgtggcttgatgcagTAAGCTTATCAACGTTGCAGTGCCAGGGACAATAGATGAACGAGCTATTAACACCAAACGGGTACTAAATCCATGGGAGAGGAATGAAAACCATACCCTT
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gtgagcttttttttttgttagcggtgttatgttactgctactctgttacgttcttctgctgtgcagtttcttcagttttaacctctgttcatgatgatcttctgttttgtaa--tgaaccagCAAGTTGATCAACGTTGCTGTTCCGGGCACGATAGATGAGAGAGCGATTAACACAAAGAAGCATCTTAATCCATGGGAGAGGAACGAGAACCATACCCTT
upper sequence: Vv19s0090g01440.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G46580.1 (Glycine max), 3'ss of exon 3
gtacttaagcatggtctgct--tgataatactctactttgttatgtcaatgaatatgctgtggcttataaagaacatatgtcttgtggcttgatgcagTAAGCTTATCAACGTTGCAGTGCCAGGGACAATAGATGAACGAGCTATTAACACCAAACGGGTACTAAATCCATGGGAGAGGAATGAAAACCATACCCTT
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gtatataagcagggtctgctgattgttgcattttacttatgtgtgtta-tgagcctttaatgtatattggctttgatatatgtcgttgtttaatgcagTAAACTTATCAATGTTGCTGTGCCTGGGACTATAGATGAACGGACCATCAATTGCAAACGGAATCCTAGTTTTTGGGAGGTAAACGAGAACCATACTCTA
upper sequence: Vv19s0090g01440.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G55400.1 (Arabidopsis thaliana), 3'ss of exon 3
-----gtacttaagcatggtctgcttgataatactctactttgttatgtcaatgaatatg---ctgtggcttataaagaaca---tatgtcttgtggcttgatgcagTAAGCTTATCAACGTTGCAGTGCCAGGGACAATAGATGAACGAGCTATTAACACCAAACGGGTACTAAATCCATGGGAGAGGAATGAAAACCATACCCTT
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gtaatgaacttatgtgaaaatttgtgttttggatttcagtct-caacattagtacattttggtttctggattttgacttgtactctctttttcctttgttggcacagTAAGCTTATAAATATAGCAGTTCCTGGGACAATAGATGAACGAGCGATCAACACGAAAAGGGTACTTAACCCATGGGAGAGAAATGAGAATCACACGCTC
upper sequence: Vv19s0090g01440.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G26700.1 (Arabidopsis thaliana), 3'ss of exon 3
gtacttaagcatggtctgcttgataatactctactttgttatgtcaatgaatatgctgtg-gcttataaagaacatatgtcttgtggctt--gatgcagTAAGCTTATCAACGTTGCAGTGCCAGGGACAATAGATGAACGAGCTATTAACACCAAACGGGTACTAAATCCATGGGAGAGGAATGAAAACCATACCCTT
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-------------gtaaggtgcactagagtccatctctacacag-aatgcatctgatttctgcctttcacgtgtttctctccctttatttccggcgtagTAAGCTTATAAATGTAGCTGTTCCCGGGACAATTGATGAACGAGCGATCAACACTAAGAGGGTACTTAATCCGTGGGAGAGAAATGAGAATCACACGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcaatgaatatgctgtggcttataaagaacatatgtcttgtggcttgatgcagTAAGCTTATCAACGTTGCAGTGCCAGGGACAATAGATGAACGAGCTATTAACACCAAACGGGTACTAAATCCATGGGAGAGGAATGAAAACCATACCCTT
gcttgat putative branch site (score: 5)
ttataaagaacatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttaagcatggtctgcttgataatactctactttgttatgtcaatgaatatgctgtggcttataaagaacatatgtcttgtggcttgatgcagTAAGCTTATCAACGTTGCAGTGCCAGGGACAATAGATGAACGAGCTATTAACACCAAACGGGTACTAAATCCATGGGAGAGGAATGAAAACCATACCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA