Sequence
atgc intronic sequence ATGC exonic sequence...tacctttatagtttataccaaattctctgtgattgtacctcgcttggtgattttattaatccatactccaagtctaagtgtgattaaatgtattttgcagGCTAACACGCCGGAGGAACTCCCAGAATATCTTCTTGGAACCTGCCGCCTTAACCATCTGGATGCCTCAAAATCAGTTTTAGTGAAACCGTGATCGTCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02720.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA12G29750.1 (Glycine max), 3'ss of exon 20
---------------------------------------------------------------------------tacctt----tatagtttataccaaattctctgtgattgtacctcgcttggtgatt--ttattaatccatactc-caagtctaagtgtgattaaatgta-----ttttg--cagGCTAACACGCCGGAGGAACTCCCAGAATATCTTCTTGGAACCTGCCGCCTTAACCATCTGGATGCCTCAAAATCAGTTTTAGTGAAACCGTGATCGTCTC
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gtaaagtgatcttgttctttttctttcgttttaattagtaatcaggctaaaaaattggtgaaattatacatcaattatcttgtggaagagtctccgataatggcaatgccatt-taccttccgaacaaatttgttattcttctatactagtgattctaaattttaatttctgtacatcattttgttcagGGAAACACACGTGAAGAGCTCCCTGAATTTCTTCTTGGAACTTGCCGCCTTAACCATCTGGATGCCTCTAAAGCAGTTTGTCTGACGCTGTGACTTTCAA
upper sequence: Vv06s0004g02720.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA13G40010.1 (Glycine max), 3'ss of exon 20
------------tacctttatagtttataccaaattctctgtgattgtacctcgcttggtgattttattaatccatac-------tccaagtctaagtgtgattaaat-gtattttgcagGCTAACACGCCGGAGGAACTCCCAGAATATCTTCTTGGAACCTGCCGCCTTAACCATCTGGATGCCTCAAAATCAGTTTTAGTGAAACCGTGATCGTCTC
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gtaaagtgatcttgttctttttctttccgataatggcaatgccatt-tacctt-ctgaacgaatttgtttttctatacatgtgattataaatcttaatttttgtacatcattttgttcagGGAAACACACGTGAAGAGCTCCCTGAATTTCTCCTTGGAACTTGCCGCCTTAACCATCTGGATGCCTCTAAAGCTGTTTGTCTGATGCCATGATTTTTAA
upper sequence: Vv06s0004g02720.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: AT2G28320.1 (Arabidopsis thaliana), 3'ss of exon 20
-----tacctttatagtttataccaaattctctgtgattgtacctcgcttggtgattttatta---atccatactccaagtctaagtgtg-attaaatgtattttgcagGCTAACACGCCGGAGGAACTCCCAGAATATCTTCTTGGAACCTGCCGCCTTAACCATCTGGATGCCTCAAAATCAGTTTTAGTGAAACCGTGATCGTCTC
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gtaaactaattaccaatctttcctggtttaaatctaagtcaacttcggtgggtattctggttacatattgaagcattggatttgagtgagcaatttcttctttgtgcagGCGAATACCGAAGAGGAGCTCCCAGAATATCTTCTTGGAACATGTCGGTTTAACCATCTCGACGCTTCCAAAGCAATTTCAATTATTCCATGAAAGACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtgattttattaatccatactccaagtctaagtgtgattaaatgtattttgcagGCTAACACGCCGGAGGAACTCCCAGAATATCTTCTTGGAACCTGCCGCCTTAACCATCTGGATGCCTCAAAATCAGTTTTAGTGAAACCGTGATCGTCTC
tattaat putative branch site (score: 2)
tgattaaatgtatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacctttatagtttataccaaattctctgtgattgtacctcgcttggtgattttattaatccatactccaagtctaagtgtgattaaatgtattttgcagGCTAACACGCCGGAGGAACTCCCAGAATATCTTCTTGGAACCTGCCGCCTTAACCATCTGGATGCCTCAAAATCAGTTTTAGTGAAACCGTGATCGTCTC
- - - - - - - ataccaa
- - - - - - - - - - - - - - - - - - acctcgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccaag