Sequence
atgc intronic sequence ATGC exonic sequence...ttgcctttagtttctgttgatttttgttggttcatgttttaatttgtttaattatttgcttttcactttaaatttttttttatgatctcttttgtttcagTTAAAGATGAAAGCAGAACTGCACTATGGTGAGGCTAATTGTCCTCTTATGGTTCCTGATAATTTTCCGAAGGATGATGAGCTTCATTTTGAGATTGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G117746_T01 (Zea mays), 3'ss of exon 4
---------------------------------ttgcctttagtttctgttgatttttgttggttcatgttt----taatttgtttaattatttgcttttcactttaaatttttttttatgatctctt-------ttgtttcagTTAAAGATGAAAGCAGAACTGCACTATGGTGAGGCTAATTGTCCTCTTATGGTTCCTGATAATTTTCCGAAGGATGATGAGCTTCATTTTGAGATTGAGA
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gtatggtatttctaatacgaagacactactcagtttcatggagaatgcagcgatttgaaaatgcacatgttaacaataatacatgcgcatattgtttagtcatttttgtctctttttcttactcacttatattctttttttcagTTCAAAATGCAGCCTAAAATTCACTACGCTGAGGACGATTGTCCAGTTGCAACTCCAGATGGCTTTCCGAAGGATGATGAACTTCAATTTGAGATTGAAA
upper sequence: Vv08s0007g01460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G16440.1 (Glycine max), 3'ss of exon 4
ttgcctttagtttctgttgatttttgttggttcatgtttta-atttgtttaattat-ttgcttttcactttaaatttttttttatgatctcttttgtttcagTTAAAGATGAAAGCAGAACTGCACTATGGTGAGGCTAATTGTCCTCTTATGGTTCCTGATAATTTTCCGAAGGATGATGAGCTTCATTTTGAGATTGAGA
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gtgattttttctttaataaatttttattgggaattgaaaaggaattatctgattatactgaattattttttta--ttaactagattctattatgtattgcagTTCAAGATGAAGCCTCAGTTGCATTATGGTGAGGATGATTGTCCTGTTTCTGCTCCTGATGGTTTTCCTAAGGATGATGAACTTCATTTTGAAATTGAGC
upper sequence: Vv08s0007g01460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G54010.2 (Arabidopsis thaliana), 3'ss of exon 3
--ttgcctttagtt--tctgttgatttttgttggttcatgttttaatttgtttaattatttgcttttcactttaaatttttttttatgatctcttttgtttcagTTAAAGATGAAAGCAGAACTGCACTATGGTGAGGCTAATTGTCCTCTTATGGTTCCTGATAATTTTCCGAAGGATGATGAGCTTCATTTTGAGATTGAGA
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aagttcaatgagtcgattcgccaaatctt-ccattagctatttcaacttactttcttgattctcaacggctgaaaagtcttt---atctttttccttttttcagTTCAAGATGAAACCTGAAATGCACTATGCAGAGATTGATTGTCCAGTCTCAGCTCCAGAAAATTTTCCAAAAGATGATGAGCTTCATTTTGAGATTGAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttaattatttgcttttcactttaaatttttttttatgatctcttttgtttcagTTAAAGATGAAAGCAGAACTGCACTATGGTGAGGCTAATTGTCCTCTTATGGTTCCTGATAATTTTCCGAAGGATGATGAGCTTCATTTTGAGATTGAGA
gtttaat putative branch site (score: 4)
tttttttttatgatct putative PPT
attatttgcttttcac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgcctttagtttctgttgatttttgttggttcatgttttaatttgtttaattatttgcttttcactttaaatttttttttatgatctcttttgtttcagTTAAAGATGAAAGCAGAACTGCACTATGGTGAGGCTAATTGTCCTCTTATGGTTCCTGATAATTTTCCGAAGGATGATGAGCTTCATTTTGAGATTGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
-tgccttt
- - - - - - -ctgttga
- - - - - - - - - - - - - - -gttcatg