Sequence
atgc intronic sequence ATGC exonic sequencegtgcagtttatttttaagactttttttctaaaatttgagaaatatctagttcccatttgtttaatagttgggagtgggttgtgctagaatggtctattgaactttgagtttattgcagGATGTTCATGATAGAGCCTTATTCTACTACAGGCTTTTGCAATACAATGTATCTGTGGCAGAGCGTGTTGTGAACCCTCCAAAGCAAGCTGTTTCAGTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 10
gtgcagtttatttttaagactttttttctaaaatttgagaaatatctagttcccatttgtttaatagttgggagtgggttgtgctagaatggtctattgaactttgagtttattgcagGATGTTCATGATAGAGCCTTATTCTACTACAGGCTTTTGCAATACAATGTATCTGTGGCAGAGCGTGTTGTGAACCCTCCAAAGCAAGCTGTTTCAGTCT
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------------gtcaggatttgttt----gagtttctgctataaaagatt---gattattcatca-ccactggtgatttttttttgatctggcta---aacctcacatctgttgcagGATGTTCATGACAGAGCACTTTTCTACTACAGGCTTTTGCAATACAATCCTAATGTAGCAGAACGTGTAGTAAACCCTCCCAAACAAGCTGTCTCTGTAT
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G029077_T01 (Zea mays), 3'ss of exon 8
gtgcagtttatttttaagactttttttctaaaatttgagaaatatctagttcccatttgtttaatagttgggagtgggttgtgctagaatggtctattgaactttgagtttattgcagGATGTTCATGATAGAGCCTTATTCTACTACAGGCTTTTGCAATACAATGTATCTGTGGCAGAGCGTGTTGTGAACCCTCCAAAGCAAGCTGTTTCAGTCT
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------------gtcaggatttgttt----aggtttctgctataaaaggtggattattcatcatcactggtgaaaagattttgatctagc-------taaacctcacatctgttgcagGATGTTCATGACAGAGCACTTTTTTACTACAGGCTTTTGCAATACAGTCCTAATGTAGCAGAACGTGTAGTAAACCCTCCCAAGCAAGCTGTCTCTGTAT
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G08480.1 (Glycine max), 3'ss of exon 8
gtgcagtttatttttaagactttttttctaaaatttgagaaatatctagttcccatttgtttaatagttgggagtgggttgtgctagaatggtctattgaactttgagtttattgcagGATGTTCATGATAGAGCCTTATTCTACTACAGGCTTTTGCAATACAATGTATCTGTGGCAGAGCGTGTTGTGAACCCTCCAAAGCAAGCTGTTTCAGTCT
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gtttgaattgttgttactagttactactttgtattgtcaaaacagtgaatt-------gtttgaatatttgctttgtggtatgttaaa---------tgagctttttgttgattgcagGATGTTCATGATAGGGCCTTATTTTATTACAGGCTTCTGCAATACAATGTATCAGTGGCAGAGAGTGTGGTTAACCCTCCAAAGCAAGCAGTTTCAGTAT
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G08590.1 (Glycine max), 3'ss of exon 8
gtgcagtttatttttaagactttttttctaaaatttgagaaatatctagttcccatttgtttaatagttgggagtgggttgtgctagaatggtctattgaactttgagtttattgcagGATGTTCATGATAGAGCCTTATTCTACTACAGGCTTTTGCAATACAATGTATCTGTGGCAGAGCGTGTTGTGAACCCTCCAAAGCAAGCTGTTTCAGTCT
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gtttgaattgttgttactggttactactttgtattgtcaaaacaatgaatt---gtttgaatatttgcttgtattg--ctgcagtaa----gttaaatgagctttttgttgattgcagGATGTTCATGATAGGGCCTTATTTTATTACAGGCTTCTGCAATATAATGTATCAGTGGCAGAGAGTGTGGTCAACCCTCCAAAGCAAGCAGTTTCAGTAT
upper sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G11490.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgcagtttatttttaagactttttttctaaaatttgagaaatatctagttcccatttgtttaatagttgggagtgggttgtgctagaatggtctattgaactttgagt-ttattgcagGATGTTCATGATAGAGCCTTATTCTACTACAGGCTTTTGCAATACAATGTATCTGTGGCAGAGCGTGTTGTGAACCCTCCAAAGCAAGCTGTTTCAGTCT
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-----------------gtttcttcctatctccccttccaaatttctctttctttttttcaaacccattgg--------cctattaga-tcactaattcaacatttactgttggcatagGATGTTCATGACCGAGCCTTGTTCTACTATCGGGTTCTGCAATACGATGTACACGTGGCAGAACGTGTTGTTAGTCCTCCAAAACAGGCGGTTTCAGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagttgggagtgggttgtgctagaatggtctattgaactttgagtttattgcagGATGTTCATGATAGAGCCTTATTCTACTACAGGCTTTTGCAATACAATGTATCTGTGGCAGAGCGTGTTGTGAACCCTCCAAAGCAAGCTGTTTCAGTCT
gtttaat putative branch site (score: 4)
agtttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcagtttatttttaagactttttttctaaaatttgagaaatatctagttcccatttgtttaatagttgggagtgggttgtgctagaatggtctattgaactttgagtttattgcagGATGTTCATGATAGAGCCTTATTCTACTACAGGCTTTTGCAATACAATGTATCTGTGGCAGAGCGTGTTGTGAACCCTCCAAAGCAAGCTGTTTCAGTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT