Sequence
atgc intronic sequence ATGC exonic sequencegtaagttctaactatagtggtttcataggcttttctacttgagatgggtgcaactccagaatgcattgtacttattggattagcccttttttttttaatgtagGAGAAAATACCGTCAGCACCCTTGGCCGTGTAGTGCTAATCATATGGCTATTTGTAGTTCTAATCATCAACTCAAGCTACACTGCAAGCCTTACCTCAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G33010.1 (Glycine max), 3'ss of exon 5
gtaagttctaactatagtggtttcataggcttttctacttgagatgggtgcaactccagaatgcattgtacttattggat-tagcccttttttttttaatgtagGAGAAAATACCGTCAGCACCCTTGGCCGTGTAGTGCTAATCATATGGCTATTTGTAGTTCTAATCATCAACTCAAGCTACACTGCAAGCCTTACCTCAAT
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-cgaattccaaatggacaacaccaccaaaatcatctaaaaaaactgcattgaaagt---gttgcacttaatttaatatctctaacatgattatttctttttcagGAGAAAAAACTGTGAGCACTCTGGGTCGCTTAGTGCTAATAATATGGCTTTTTGTGGTTTTAATACTCAACTCAAGCTACATTGCAAGCCTCACCTCCAT
upper sequence: Vv07s0031g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G32990.1 (Glycine max), 3'ss of exon 4
--gtaagttctaactatagtggtttcataggcttttctacttgagatgggtgcaactccagaat--gcattgtacttattggattagcccttttttttttaatgtagGAGAAAATACCGTCAGCACCCTTGGCCGTGTAGTGCTAATCATATGGCTATTTGTAGTTCTAATCATCAACTCAAGCTACACTGCAAGCCTTACCTCAAT
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ttttcatttccatctttagaaacaaaa-actcatgttaccttgtaaaaaatgatggtgtacatttaaagtcttacatctcagaaaaacaccttct------atgcagGAGAGAAAACTGTGAGCACCCTTGGTCGATTAGTGCTAATAATATGGCTTTTTGTGGTTTTGATACTCAACTCAAGCTACATTGCTAGCCTCACCTCCAT
upper sequence: Vv07s0031g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G32980.1 (Glycine max), 3'ss of exon 5
gtaagttctaactatagtggtttcataggcttttctacttgagatgggtgcaactccagaatgcattgtacttattggattagcccttttttttttaatgtagGAGAAAATACCGTCAGCACCCTTGGCCGTGTAGTGCTAATCATATGGCTATTTGTAGTTCTAATCATCAACTCAAGCTACACTGCAAGCCTTACCTCAAT
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gtaagtaccagttctt-tgtcttctgtgacatgtatggtccat----gtataagtggtggctactttgagtttatcaactt-gctcttttctgtactatgtagGGGAAAACACAGTGAGCACTCTCGGTCGCTTTGTGCTGCTTATATGGTTATTTGTAGTTCTAATAATTAACTCAAGTTACACAGCAAGCTTGACATCAAT
upper sequence: Vv07s0031g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G21470.1 (Glycine max), 3'ss of exon 5
gtaagttctaactatagtggtttcataggcttttctacttgagatgggtgcaactccagaatgcattgtacttattggattagcccttttttttttaatgtagGAGAAAATACCGTCAGCACCCTTGGCCGTGTAGTGCTAATCATATGGCTATTTGTAGTTCTAATCATCAACTCAAGCTACACTGCAAGCCTTACCTCAAT
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--------------------------------------------------------gtggctattttgagtttatcaactt-gctcttttctgtactatgtagGGGAAAATACAGTGAGCACTCTCGGTCGCTTTGTGCTGCTTATATGGTTATTTGTAGTTCTAATAATTAACTCAAGTTACACAGCAAGTTTGACATCAAT
upper sequence: Vv07s0031g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G36210.1 (Glycine max), 3'ss of exon 5
gtaagttctaactatagtggtttcataggcttttctacttgagatgggtgcaactccagaatgcattgtacttattggattagcccttttttttttaatgtagGAGAAAATACCGTCAGCACCCTTGGCCGTGTAGTGCTAATCATATGGCTATTTGTAGTTCTAATCATCAACTCAAGCTACACTGCAAGCCTTACCTCAAT
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gtaagtgccagttctttgtcttttgt-gacatctattgtcaaagtgg---cagcttc------ccttcgattaatcaagttg---cttttgtctaccatgcagGGGAAAATACAGTGAGCACACTTGGCCGCTTTGTGTTGATTATATGGTTATTTGTAGTTCTTATAATTAACTCGAGTTACACGGCAAGTCTAACCTCAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcaactccagaatgcattgtacttattggattagcccttttttttttaatgtagGAGAAAATACCGTCAGCACCCTTGGCCGTGTAGTGCTAATCATATGGCTATTTGTAGTTCTAATCATCAACTCAAGCTACACTGCAAGCCTTACCTCAAT
ttttaat putative branch site (score: 3)
ttagcccttttttttt CT-rich tract
ttttttttttaatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttctaactatagtggtttcataggcttttctacttgagatgggtgcaactccagaatgcattgtacttattggattagcccttttttttttaatgtagGAGAAAATACCGTCAGCACCCTTGGCCGTGTAGTGCTAATCATATGGCTATTTGTAGTTCTAATCATCAACTCAAGCTACACTGCAAGCCTTACCTCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT