Sequence
atgc intronic sequence ATGC exonic sequencegtattttggaaattttattttaatcctcatggttctagcatgcgttggtttttgagcttaccaccttgaatatacatcgaaactttctgttttaaaaatcactaagttgagggtttttataagaaatctcatatgaaccttagctatattctgatgcagGTATTGGCTGTTGTCAAACGTTGGCCTGAGGTGCGAAAGATCTCCTTTGTGGCACACTCTTTGGGTGGGCTTGTTGCAAGGTATGCTGTTGCGAGGCTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g01660.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g34750.1 (Oryza sativa), 3'ss of exon 3
gtattttggaaattttattttaatcctcatggttctagcatgcgttggtttttgagcttaccaccttgaatatacatcgaaactttctgttttaa---aaatcactaagttgagggttttta--taagaaatctcatat-gaaccttagctatattctgatgcagGTATTGGCTGTTGTCAAACGTTGGCCTGAGGTGCGAAAGATCTCCTTTGTGGCACACTCTTTGGGTGGGCTTGTTGCAAGGTATGCTGTTGCGAGGCTGT
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------------------------------------------------------------ctacattga---tccatgggagtttgttttcatagttcaaacttgtaagtcctgtgtattcagctacatcatttcatattggaagctaactaaattattat--agGTTTTATCAGTTGTAGAACAAAGAAGAGGTGTGAAGAAGATCTCATTTGTGGCACACTCTCTAGGTGGCCTTGTTGCTAGATATGCTATAGGGAGGCTTT
upper sequence: Vv11s0052g01660.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G20400.2 (Glycine max), 3'ss of exon 3
gtattttggaaattttattttaatcctcatggttctagcatg--cgttggtttttgagcttaccaccttgaatatacatcgaaactttctgttttaaaaatcactaagttgagggtt--tttataagaaatctcatatgaaccttagctatattctgatgcagGTATTGGCTGTTGTCAAACGTTGGCCTGAGGTGCGAAAGATCTCCTTTGTGGCACACTCTTTGGGTGGGCTTGTTGCAAGGTATGCTGTTGCGAGGCTGT
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-------------------gtatttttggtaattatagtatgatcatttttttttctctttacaatcttaa---tctctcttaattttcatttacagtgttggctttgcagcgactcactcagtcacatatatatcttcagttttaatt-catatttatgcagGTATTATCTGTTGTTAAACGTTGGCCAGAGGTGCAGAAGATATCCTTTGTGGCGCATTCTCTAGGAGGCTTGGTGGCAAGATATGCTATTGGGAGACTTT
upper sequence: Vv11s0052g01660.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G25620.1 (Glycine max), 3'ss of exon 4
gtattttggaaattttattttaatcctcatggttctagcatgcgttggtttttgagcttaccaccttgaatatacatcgaaactttctgttttaaaaatcactaagttgagggtttttataagaaatctcatatgaaccttagctatattctgatgcagGTATTGGCTGTTGTCAAACGTTGGCCTGAGGTGCGAAAGATCTCCTTTGTGGCACACTCTTTGGGTGGGCTTGTTGCAAGGTATGCTGTTGCGAGGCTGT
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gtattttggtaattataatatgat------aatttttttactctttacaatcttaatctctcatacttaattttcatttacagtgttggctttgcag-tgactcagtcacatatatatatcatcagtttta----------attcatattt--atgcagGTATTATCTGTTGTTAGACGTTGGCCAGAGGTGCAGAAGATATCCTTTGTGGCGCATTCTCTAGGAGGCTTGGTGGCAAGATATGCTATTGGGAGACTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttgagggtttttataagaaatctcatatgaaccttagctatattctgatgcagGTATTGGCTGTTGTCAAACGTTGGCCTGAGGTGCGAAAGATCTCCTTTGTGGCACACTCTTTGGGTGGGCTTGTTGCAAGGTATGCTGTTGCGAGGCTGT
ttctgat putative branch site (score: 3)
tttttataagaaatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttggaaattttattttaatcctcatggttctagcatgcgttggtttttgagcttaccaccttgaatatacatcgaaactttctgttttaaaaatcactaagttgagggtttttataagaaatctcatatgaaccttagctatattctgatgcagGTATTGGCTGTTGTCAAACGTTGGCCTGAGGTGCGAAAGATCTCCTTTGTGGCACACTCTTTGGGTGGGCTTGTTGCAAGGTATGCTGTTGCGAGGCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT