Sequence
atgc intronic sequence ATGC exonic sequencegtttttatatctggtactcaataattatatctttaactagatttccttttttctatgaagaaaaatactcacaaccttcttggttgttgacctgcatatttagatgtttcattttttatatagtaagaagccataattgttgtactctgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g19059.1 (Oryza sativa), 3'ss of exon 1
gtttttatatctggtactcaataattatatctttaactagatttccttttttctatgaagaaaaatactcacaaccttcttggttgttgacctgcatatttagatgtttcattttttatatagtaagaagccataattgttgtactctgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT
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--------------------atggcagcttgctttgcaaaattttcag------aagcgcaactgaaccctcgcgcctgatatctaaatagctgctcacgaatccacctcccttattgtgtaccagGTA-CCAAGATGAAGGT------CAAGATTCTTCAGTGGCATTCGGTGGCTTCTTGGACATGGGACGCCCAGGATGAAACCTGTGGTATATGCAGGATGGCATTCGA----------------------------
upper sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G28310.1 (Glycine max), 3'ss of exon 1
gtttttatatctggtactcaataattatatctttaactagatttccttttttctatgaagaaaaatactcacaaccttcttggttgttgacctgcatatttagatgtttcattttttatatagtaagaagccataattgttgtactc---tgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT
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------------------------------------------------ttttccaa----------atttttagcctccctagtttctatctt-----ttcatttgctttgcgactaa-atcaagcacatccttaattttctcattcccttttgtcaaatatagATGGCATGCTGTTGCTTCATGGACTTGGGATGCCCAGGATGAAACCTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
upper sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G34030.1 (Glycine max), 3'ss of exon 1
gtttttatatctggtactcaataattatatctttaactagatttccttttttctatgaagaaaaatactcacaaccttcttggttgttgacctgcatatttagatgtttcatttttta-tatagtaagaa-gccataattgttg--tactctgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT
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-----------------------------------------------aatttttattctgaa-----ttttcagcctccttaattctttatcta-------------ttcatttgtaactaaaccaagaacatcctaatttttggttcccttttgtgaaatatagATGGCATGCTATTGCTTCTTGGACTTGGGATGCACAGGACGAAACGTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
upper sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G05870.1 (Arabidopsis thaliana), 3'ss of exon 2
gtttttatatctggtactcaataattatatctttaactagatttccttttttctatgaagaaaaata--ctcacaaccttcttggttgttgacctgcatatttagatgtttcattttttatatagtaagaagccataattgttgtactctgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT
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-----------------------------------------------------aaaaaaacagagtaggttcctcgtccctttagct-ttaacacatgagctcttacaatgcggagtttctattgttgtaac---tgattgtttctccctggaa------tagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcattttttatatagtaagaagccataattgttgtactctgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT
ttttttatatagtaag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttatatctggtactcaataattatatctttaactagatttccttttttctatgaagaaaaatactcacaaccttcttggttgttgacctgcatatttagatgtttcattttttatatagtaagaagccataattgttgtactctgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG