Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtattttcattaagattgtgtatattaagccacatgcataatatgttaattaacatataaggtaattattctttttccttatttctaatggtaaaatgcagATATTTGGTCGCAACTTGTTTTGGTATGCTGCTGTTTTTGGAACTATAACAGCTATTAGCCGGGCTGCTGTAACAGATGAGCTTCTGGTCCTTGATCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G31890.1 (Glycine max), 3'ss of exon 4
gtaatgtattttcattaagattgtgtatattaagccacatgcataatatgttaattaacatataaggtaattattctttttccttatttctaatggtaaaatgcagATATTTGGTCGCAACTTGTTTTGGTATGCTGCTGTTTTTGGAACTATAACAGCTATTAGCCGGGCTGCTGTAACAGATGAGCTTCTGGTCCTTGATCCAG
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gtaatgaatatctgttaattttgcataaggta-------tgcatagtgtcatgacagtcattaagggt--------tttttttttaaatgaaaa---atattgcagATATTTGGTCGGAACTTGTTTTGGTATGCTGCTGTTTTTGGAACTATAACTGCCATTAGCCGGGCTGCCATTACCAGTGAGGTTCTGGTCTTAGACGCTG
upper sequence: Vv07s0005g03100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G04120.1 (Glycine max), 3'ss of exon 4
gtaatgtattttcattaagattgtgtatattaagccac--atgcataatatgttaattaacatataaggtaattattctttttccttatttctaatggtaaaatg------cagATATTTGGTCGCAACTTGTTTTGGTATGCTGCTGTTTTTGGAACTATAACAGCTATTAGCCGGGCTGCTGTAACAGATGAGCTTCTGGTCCTTGATCCAG
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gtaatggtttttccattcttttgc-tgaaacaagttataaatacatgtcatgacattcagta-ataa--tagcgtcttttttttttttttttgaaaaacaaaatatcaatccagATATTTGGTCGGAACTTGTTCTGGTATGCTGCTGTTTTTGGAACTATAACTGCTATTAGACGGGCTGCAATTGCAGATGAGCTTCTAGTCATAGACCCCG
upper sequence: Vv07s0005g03100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G34630.1 (Glycine max), 3'ss of exon 5
gtaatgtattttcattaagattgtgtatattaagccacatgcataatatgttaattaacatataaggtaattattctttttccttatttctaatggtaaaatgcagATATTTGGTCGCAACTTGTTTTGGTATGCTGCTGTTTTTGGAACTATAACAGCTATTAGCCGGGCTGCTGTAACAGATGAGCTTCTGGTCCTTGATCCAG
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gtaatgaatctctgttaattttgcataaggta-------tgaataatgtcatgacagtcat-taaggaa-------ttttttaaaatgaaaaat-----attgcagGTATTTGGTCGGAACTTGTTTTGGTATGCTGCTGTTTTTGGAACTATAACTGCCATTAGCCGGGCTGCCATTACCAATGAGGTTCTAGTCTTAGACGCTG
upper sequence: Vv07s0005g03100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G18300.1 (Glycine max), 3'ss of exon 4
gtaatg-tattttcattaagattgtgtatattaagccacatgcataatatgttaattaacatataaggtaattattctttttcctt-atttctaatggtaaaatgcagATATTTGGTCGCAACTTGTTTTGGTATGCTGCTGTTTTTGGAACTATAACAGCTATTAGCCGGGCTGCTGTAACAGATGAGCTTCTGGTCCTTGATCCAG
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gtaatggtttttccattcttatgctgaaagaagttgtaaatatatgtcatgacagtcagta------gtaatagttttttttttttgaaaaacaaaaaatcaatccagATATTTGGTCGGAACTTGTTCTGGTATGCTGCTGTTTTTGGAACTATAACTGCTATTAGACGGGCTTCAATTACAGATGAGCTTCTAGTCATAGACCCCG
upper sequence: Vv07s0005g03100.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G31260.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaatgtattttcattaagattgtgtatattaagccacatgcataatatgttaattaacatataaggtaattattctttttccttatttctaatggtaaaatgcagATATTTGGTCGCAACTTGTTTTGGTATGCTGCTGTTTTTGGAACTATAACAGCTATTAGCCGGGCTGCTGTAACAGATGAGCTTCTGGTCCTTGATCCAG
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-------------------gtaagaaatactaa-caacgcaaaaagcat-ttgatagataaattatttgggtattgaagtttcttttaccacctg------tgtagATATTCGGCCGCAATCTGTTCTGGTATGCCGCTGTTTTTGGAACAATTACAGCTATTAGTAGAGCTGCCATATCGGATGAACTTTTGGTCCTCGACCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattaacatataaggtaattattctttttccttatttctaatggtaaaatgcagATATTTGGTCGCAACTTGTTTTGGTATGCTGCTGTTTTTGGAACTATAACAGCTATTAGCCGGGCTGCTGTAACAGATGAGCTTCTGGTCCTTGATCCAG
ttctaat putative branch site (score: 2)
taattattctttttcc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtattttcattaagattgtgtatattaagccacatgcataatatgttaattaacatataaggtaattattctttttccttatttctaatggtaaaatgcagATATTTGGTCGCAACTTGTTTTGGTATGCTGCTGTTTTTGGAACTATAACAGCTATTAGCCGGGCTGCTGTAACAGATGAGCTTCTGGTCCTTGATCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT