Sequence
atgc intronic sequence ATGC exonic sequence...atgtattttgtcaatgtgaaaccaatgggtcctaataatgtgggaaaccctttattttgcaatgtgatgtgtggtttaattattgggcatgtttctccagTGATTGCTATGAGAGCATTGAAAGAATCTCTTCGTATTCCGGCTAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G11090.1 (Glycine max), 3'ss of exon 2
atgtattttgtcaatgtgaaaccaatg----ggtcctaataatgtgg---gaaaccctttattttgcaatgtgatgtgtggtttaattattgggcatgtttc--tccagTGATTGCTATGAGAGCATTGAAAGAATCTCTTCGTATTCCGGCTAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
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--------caacaatggggaaggagtgacttggtcaagattttgttgactggagaattgtggtaagtga-atgactttttcttttttcattttctttgtttgggtgcagTGGTTGCCATGAAAGCATTGAAAGATTCGCTGCGGGTACCCGAAAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
upper sequence: Vv01s0011g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G22470.1 (Glycine max), 3'ss of exon 2
atgtattttgtcaatgtgaaaccaatgggtcctaataatgtgggaaaccctttattttgcaa--tgtgatgtgtggtttaattattgggcatgtttctccagTGATTGCTATGAGAGCATTGAAAGAATCTCTTCGTATTCCGGCTAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
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atgatttttatttacaacaatggggaagggagggacttggtttagattttgttgactggagaattgtggtaagtgaatggctttttttgtttgggtg--cagTGGTTGCCATGAAAGCATTGAAGGATTCATTTCGAGTACCTGAAAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
upper sequence: Vv01s0011g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G32720.1 (Glycine max), 3'ss of exon 1
atgtattttgtcaatgtgaaaccaatgggtcctaataatgtgggaaaccctttattttgcaa-tgtgatgtgtggtttaattattgggcatgtttctccagTGATTGCTATGAGAGCATTGAAAGAATCTCTTCGTATTCCGGCTAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
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-------------gtctcattctcgctctctctaattttgtttcattcgtaccaatttgaaaacgtaatcagttgtgtgaattcta---atgtgtttgtagTGAGTGCAATGAAGGCGTTGAAAGAGTCGCTGCGTGTTCCTGATAGAATGGGTTGGAATGGTGATCCCTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
upper sequence: Vv01s0011g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G25570.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------atgtattttgtcaatgtgaaac-caatggg--tcctaataatgtgggaaacccttta----ttttgc---aatgtgatgtgtggtttaatt---attgggcatgt-ttctccagTGATTGCTATGAGAGCATTGAAAGAATCTCTTCGTATTCCGGCTAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
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gtacgtcaagttaaggatactcactgttgtttgatggattgcaacatcatgggtttcttgatttgattggagttctgataatagctttgagaaaaactggtctgtggcatatttttgactctctgtttgttttacagTGACTGCTATGAAAGCATTGAAGGATTCACTACGTGTTCCTGATAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAGCTGGGACGCTTGGGAGGG
upper sequence: Vv01s0011g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ07666 (Selaginella moellendorffii), 3'ss of exon 1
atgtattttgtcaatgtgaaaccaatgggtcctaataatgtgggaaaccctttattttgcaatgtgatgt--gtggtttaattattgggcatgtttctccagTGATTGCTATGAGAGCATTGAAAGAATCTCTTCGTATTCCGGCTAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
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-------------------------------------gtatgttaaagga---agtttcggacgtgatgtttgtaaacgtttttttttttttttttttgcagTTCTAGCAATGCTAGCTTTGAAAGAAAGCTTGCGAGTTCCTGAGAGAATGGGATGGAATGGCGATCCTTGTGCTCCGTTTAATTGGGATACATGGGAAGG
upper sequence: Vv01s0011g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ07722 (Selaginella moellendorffii), 3'ss of exon 1
atgtattttgtcaatgtgaaaccaatgggtcctaataatgtgggaaaccctttattttgcaatgtgatgtgtggtttaattattgggcatgtttctccagTGATTGCTATGAGAGCATTGAAAGAATCTCTTCGTATTCCGGCTAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
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-----------gtatgttaaaggaagtttcggacgtgatgtttgtaaacgtttttttt-----------tttttttttttttttttttttttttttgcagTTCTAGCAATGCTAGCTTTGAAAGAAAGCTTGCGAGTTCCTGAGAGAATGGGATGGAATGGCGATCCTTGTGCTCCGTTTAATTGGGATACATGGGAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccctttattttgcaatgtgatgtgtggtttaattattgggcatgtttctccagTGATTGCTATGAGAGCATTGAAAGAATCTCTTCGTATTCCGGCTAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
gtttaat putative branch site (score: 4)
tgtttctcc putative PPT
tttaattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtattttgtcaatgtgaaaccaatgggtcctaataatgtgggaaaccctttattttgcaatgtgatgtgtggtttaattattgggcatgtttctccagTGATTGCTATGAGAGCATTGAAAGAATCTCTTCGTATTCCGGCTAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
- - - - - -caatgtg
- - - - - - - - - aaaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgg