Sequence
atgc intronic sequence ATGC exonic sequence...gggaccattagtaaggagtctgggcaagtctttctgcatatcatcttaagaaacttgtaatctttattaatgatcactttttttccctcctcttattcagCACCCCAACTGGTGTTGAGACACCTGATGTTATTGACCTACGTAAGCAACAGAGGAAGGAGCCAGAGAGGCCACTTTATCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G132060_T02 (Zea mays), 3'ss of exon 11
----------gggaccattagtaaggagtctgggcaagtctttctgcatatcatcttaagaaacttgtaatctttattaatgatcactt--tttttccctcctcttattcagCACCCCAACTGGTGTTGAGACACCTGATGTTATTGACCTACGTAAGCAACAGAGGAAGGAGCCAGAGAGGCCACTTTATCAA------------
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gtggtttactatatttctttctttagtattttgtaggtccttgttttcccttttctttagtaatgctgatgcagtagacatgtatgcctaacttttttttacctccaaccagTACTCCAACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCAGAGGAAGGAGACTGACAAGCAGGCAGAACGGCCGCTGTACCAG
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G121354_T01 (Zea mays), 3'ss of exon 7
---------gggaccattagtaaggagtc-tgggcaagtctttctgcatatcatct-taagaaacttgtaatctttattaatgatcactttttttccctcctcttattcagCACCCCAACTGGTGTTGAGACACCTGATGTTATTGACCTACGTAAGCAACAGAGGAAGGAGCCAGAGAGGCCACTTTATCAA------------
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gtgatttacgtatttctctgtattgttttgtaggcacttggttttccttttctttagtaatggtgatgcagtacacat--gtagcctaattctctctctgcgtccaaccagTACTCCGACTGGTGTTGAAACACCTGATGTTATCGACCTTCGGAAGCTGCAGAGGAAGGAGACTGACAAGCAGGCAGAACGGCCGTTGTATCAG
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G31550.2 (Glycine max), 3'ss of exon 12
gggaccattagtaaggagtctgggcaagtctttctgcatatcatcttaagaaacttgtaatctttattaatgatcactttttttccctcctcttattcagCACCCCAACTGGTGTTGAGACACCTGATGTTATTGACCTACGTAAGCAACAGAGGAAGGAGCCAGAGAGGCCACTTTATCAA
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aaatgaactaatctcatggatagaatagttaacagatctttgagtgtaaatttcttatcatctcatctcttaacccttttcctatgcattttcacctcagCACTCCCACTGGAGTGGAAACACCTGATGTTATTGACCTCCGGAAGCAACAGAGGAAGGAGCCTGAGAGGCCTCTTTATCAA
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 12
---gggaccattagtaaggagtctgggcaagtctttctgcatatcatcttaagaaacttgtaatctttattaatgatcactttttttccctcctcttattcagCACCCCAACTGGTGTTGAGACACCTGATGTTATTGACCTACGTAAGCAACAGAGGAAGGAGCCAGAGAGGCCACTTTATCAA
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ttgggggtggagtggagtggggctgg-tacggttggttatatgtaatctactgtcact-atcatctcatctcttaactctttcctatgcattttcac-ctcagCACTCCCACTGGAGTGGAAACACCTGATGTTATCGACCTCCGGAAGCAACAGAGGAAGGAGCCTGAGAGGCCTCTTTATCAA
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 12
--gggaccattagtaaggagtctgggcaagtctttctgcatatcatcttaagaaacttgtaatctttattaatga-tcactttttttccctcctcttattcagCACCCCAACTGGTGTTGAGACACCTGATGTTATTGACCTACGTAAGCAACAGAGGAAGGAGCCAGAGAGGCCACTTTATCAA
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ggttgatagtctgtcaaggtctggttttgggcttgttgtataatctcctgtg---tttgtgaactcatttatttcctcttttctgttgcattttccttcccagCACTCCCACTGGAGTGGAGACACCTGATGTTATTGACCTTCGTAAGCAGCAGAGGAAGGAACCTGAAAAGCCTCTTTATCAA
upper sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G31350.1 (Glycine max), 3'ss of exon 8
--gggaccattagtaaggagtctgggcaagtctttctgcatatcatcttaagaaacttgtaatctttattaatgatcacttttt-ttccctcctcttattcagCACCCCAACTGGTGTTGAGACACCTGATGTTATTGACCTACGTAAGCAACAGAGGAAGGAGCCAGAGAGGCCACTTTATCAA
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ggttgatagtctgtcaaggtatggttttgggcttgttgtataatctcctgtg---tttgtgaactcatttctttcctattttctgttacattttccttcccagCACTCCCACTGGAGTGGAGACACATGATGTTATTGACCTTCGTAAGCTGCAAAGGAAGGAACCTGAAAAGCCTCTTTATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaagaaacttgtaatctttattaatgatcactttttttccctcctcttattcagCACCCCAACTGGTGTTGAGACACCTGATGTTATTGACCTACGTAAGCAACAGAGGAAGGAGCCAGAGAGGCCACTTTATCAA
tattaat putative branch site (score: 2)
tgatcactttttttcc CT-rich tract
taatctttattaatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggaccattagtaaggagtctgggcaagtctttctgcatatcatcttaagaaacttgtaatctttattaatgatcactttttttccctcctcttattcagCACCCCAACTGGTGTTGAGACACCTGATGTTATTGACCTACGTAAGCAACAGAGGAAGGAGCCAGAGAGGCCACTTTATCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - ccattag
- - - - - - - - - - - - - - - - -ctgcata
- - - - - - - - - - - - - - - - - - - - - - - -aagaaac
