Sequence
atgc intronic sequence ATGC exonic sequencegcaagtattctttcttggggttctactgttctagtagcaattgatttcgaattgtaaaaatttttgaaggttgattttcttatagatctaatgaagttgctttattttcccattcaacggttctttgtcctttacagGAAGGATTTGCTTTCTCACATTGCACAACTTGCAAGGCGCAGTACCATCTTCAAGTTGCATTATTCGAAGACAACTCTTGGCGTAAGATAAAGTTCAGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G08220.2 (Glycine max), 3'ss of exon 3
gcaagtattctttcttggggttctactgttctagtagcaattgatttcgaattgtaaaaatttttgaaggttgattttcttata-gatctaatgaagttgctttattttccc---attcaacggttctttg-tcctttacagGAAGGATTTGCTTTCTCACATTGCACAACTTGCAAGGCGCAGTACCATCTTCAAGTTGCATTATTCGAAGACAACTCTTGGCGTAAGATAAAGTTCAGAC
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-----------------------------------------------------gtgtatatttt--gatgctggtcttgatgcataattttaactgctagtattaacttgttgagatcaaatgataatttggtgcttcatagGAAGGATTTGCCTTCTCACACTGCACAACCTGCAAAGCCCAATTTCATCTTAGAGTTGAATCGTTTGAGGACAACTCTTGGCGTAAAATAAAGTTCAGAC
upper sequence: Vv11s0016g04730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ26224 (Selaginella moellendorffii), 3'ss of exon 2
gcaagtattctttcttggggttctactgttctagtagcaattgatttcgaattgtaaaaatttttgaaggttgattttcttatagatctaatgaagttgctttattttcccattcaacggttctttgtcctttacagGAAGGATTTGCTTTCTCACATTGCACAACTTGCAAGGCGCAGTACCATCTTCAAGTTGCATTATTCGAAGACAACTCTTGGCGTAAGATAAAGTTCAGAC
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-----------------------------------------------------gtaagaactcttcctagcacatttttttct---tctaa-aacaccgaatgaaacagtggtt------ttctttgtttttcgcagGAAGGCTTTGCTTTCTCGCATTGCACGACTTGTAAAGCTCAGTTCCATCTAGTTCCCGAGATCCCAGAGGACTACTCGTGGAGAAAGCTAAAGTTCAAGC
upper sequence: Vv11s0016g04730.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ14522 (Selaginella moellendorffii), 3'ss of exon 2
gcaagtattctttcttggggttctactgttctagtagcaattgatttcgaattgtaaaaatttttgaaggttgattttcttatagatctaatgaagttgctttattttcccattcaacggttctttgtcctttacagGAAGGATTTGCTTTCTCACATTGCACAACTTGCAAGGCGCAGTACCATCTTCAAGTTGCATTATTCGAAGACAACTCTTGGCGTAAGATAAAGTTCAGAC
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-----------------------------------------------------gtaagaactcttcctagcacattttttcct---tctta-aacaccgaatgaaacagtggtt------ttctttgtttttcgcagGAAGGCTTTGCTTTCTCGCATTGCACGACTTGTAAAGCTCAGTTCCATCTAGTTCCCGAGATCCCAGAGGACTACTCGTGGAGAAAGCTAAAGTTCAAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagatctaatgaagttgctttattttcccattcaacggttctttgtcctttacagGAAGGATTTGCTTTCTCACATTGCACAACTTGCAAGGCGCAGTACCATCTTCAAGTTGCATTATTCGAAGACAACTCTTGGCGTAAGATAAAGTTCAGAC
atctaat putative branch site (score: 3)
ttctttgtcctttac putative PPT
tttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagtattctttcttggggttctactgttctagtagcaattgatttcgaattgtaaaaatttttgaaggttgattttcttatagatctaatgaagttgctttattttcccattcaacggttctttgtcctttacagGAAGGATTTGCTTTCTCACATTGCACAACTTGCAAGGCGCAGTACCATCTTCAAGTTGCATTATTCGAAGACAACTCTTGGCGTAAGATAAAGTTCAGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA