Sequence
atgc intronic sequence ATGC exonic sequence...agttctaaattgcttcaagtatcatgaaagagtgaagggagaaaaatgatatacaagtggagtggcattttacagttctaatgctgtttgggtgtttcagTGAGTCAGTTTACATTGTATGGAATTTTGAAGGGTAACAAGCCAGATTTTCATGTGGCAATGCCGCCCCAAAAAGCAAAGCCCTTTTATGCTTCGTTCGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g00640.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g14040.1 (Oryza sativa), 3'ss of exon 4
-----agttctaaattgcttcaagtatcatgaaagagtgaagggagaaaaatgatatacaagtggagtggcattttaca--gttctaatgctgtttgggtgtttcagTGAGTCAGTTTACATTGTATGGAATTTTGAAGGGTAACAAGCCAGATTTTCATGTGGCAATGCCGCCCCAAAAAGCAAAGCCCTTTTATGCTTCGTTCGT
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gtaggagtaatataatacagcatttctagtcccagatttgaaaattcttaa-gctgtagtagctttgttgttattgacaccgttactaagctgatatactatt-cagTCAGTCAATTTACCTTATATGGAATCCTGAAGGGTAACAAGCCAGATTTTCATGTGGCTATGCCACCTGCTAAAGCAAAGCCATTCTATGCTTCTTTAGT
upper sequence: Vv10s0003g00640.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G08610.1 (Glycine max), 3'ss of exon 2
agttctaaattgcttcaagtatcatgaaagagtgaagggagaaaaatgatatacaagtggagtggcattttacagttctaatgctgtttgggtgtttcagTGAGTCAGTTTACATTGTATGGAATTTTGAAGGGTAACAAGCCAGATTTTCATGTGGCAATGCCGCCCCAAAAAGCAAAGCCCTTTTATGCTTCGTTCGT
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gtgagtaagtgagtattcgcatttttcagtcttaatt----atatataggatgcaaa---aattataatttat--ttttattattgtgtgtttttaacagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTCACGTAGCCATGGCGCCTCAGAGAGCCAAGCCCTTCTATGCCTCTTTAGT
upper sequence: Vv10s0003g00640.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G30670.1 (Glycine max), 3'ss of exon 3
agttctaaattgcttcaagtatcatgaaagagtgaagggagaaaaatgatatacaagtggagtggcattttacagttctaatgctgtttgggtgtttcagTGAGTCAGTTTACATTGTATGGAATTTTGAAGGGTAACAAGCCAGATTTTCATGTGGCAATGCCGCCCCAAAAAGCAAAGCCCTTTTATGCTTCGTTCGT
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gtgagtaagtgagtattcgcattttcaat---cttaattatatattggatgcaaaaattatagtttattttattattttg----tgcttttatttaatagTGAGTCAGTTTACGTTGTATGGATTCCTGAAGGGTAACAAACCGGATTTTCACGTTGCGATGGCACCTCAGAGAGCCAAGCCATTCTATGCCTCTTTAGT
upper sequence: Vv10s0003g00640.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G18460.1 (Arabidopsis thaliana), 3'ss of exon 3
----------agttctaaattgcttcaagtatcatgaaag-agtgaagggagaaa--aatgatatacaagtggag--tggcattttacagttctaatgctgtttgg-------gtgt---ttcagTGAGTCAGTTTACATTGTATGGAATTTTGAAGGGTAACAAGCCAGATTTTCATGTGGCAATGCCGCCCCAAAAAGCAAAGCCCTTTTATGCTTCGTTCGT
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gtaatgatgcatctctttatta-ttcatataccatttgattagagaaaggtttagcttgtggtttatgtactgaggtttgttttctttgcttgccctggtctttggatcatgtgtgttaatacagTTAGTCAATTCACATTATACGGATTCTTGAAAGGTAACAAACCAGATTTTCATGTCGCAATGCCACCTGATAAAGCGAAACCTTTTTACGCCTCTTTAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgatatacaagtggagtggcattttacagttctaatgctgtttgggtgtttcagTGAGTCAGTTTACATTGTATGGAATTTTGAAGGGTAACAAGCCAGATTTTCATGTGGCAATGCCGCCCCAAAAAGCAAAGCCCTTTTATGCTTCGTTCGT
ttctaat putative branch site (score: 2)
attttaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttctaaattgcttcaagtatcatgaaagagtgaagggagaaaaatgatatacaagtggagtggcattttacagttctaatgctgtttgggtgtttcagTGAGTCAGTTTACATTGTATGGAATTTTGAAGGGTAACAAGCCAGATTTTCATGTGGCAATGCCGCCCCAAAAAGCAAAGCCCTTTTATGCTTCGTTCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - tgcttca
- - - - - - - - - - - - -gaaagag
- - - - - - - - - - - - - - - - - - - -agaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaatgc