Sequence
atgc intronic sequence ATGC exonic sequencegttgcattcctaatttttggatgctcaattctctgttattcttttactctttaatgctctttggacctgaaaccaacaaaatataatctgtttttattttttatagGTGGATGAGAATTTCCTTTTGCGTACTTTTGGAAGATTTGGTCCTATCGCTAGTGTGAAAATAATGTGGCCTAGGACAGAAGAGGAACGGAGGCGACAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g08360.1 (Oryza sativa), 3'ss of exon 7
gttgcattcctaatttttggatgctcaattctctgttattcttttactctttaatgctctttggacctga-aaccaacaaaatataatctgtttttattttttatagGTGGATGAGAATTTCCTTTTGCGTACTTTTGGAAGATTTGGTCCTATCGCTAGTGTGAAAATAATGTGGCCTAGGACAGAAGAGGAACGGAGGCGACAAA
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--------------gttggcattctccaatgcgc-ttgttttgtttatacataaggttaactttacatcatgattaacttgatg-gttgcattatattatatgacagGTGGACGAGAATTTTCTTATGAGGACATTTGGTCGTTTTGGACCTATTGCTAGTGTCAAGATTATGTGGCCTCGAACAGAAGAGGAACGCAGAAGGCAAA
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G174785_T01 (Zea mays), 3'ss of exon 7
gttgcattcctaatttttggatgctcaattctctgttattcttt-tactctttaatgctctttggacctgaaaccaacaaaatataatctgtttttatttt--ttatagGTGGATGAGAATTTCCTTTTGCGTACTTTTGGAAGATTTGGTCCTATCGCTAGTGTGAAAATAATGTGGCCTAGGACAGAAGAGGAACGGAGGCGACAAA
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----------------------------------gttgctttctctgctgtgcggt-ttcattaaacttgtatgcgttgtcttgttagctttacatgctatggtgttagGTCGATGAGAATTTTCTTTTGAGGACATTTGGTCGGTTTGGACCTATTGCTAGTGTCAAGATTATGTGGCCTAGAACAGAAGAGGAACGCAGAAGGCAAA
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G133308_T02 (Zea mays), 3'ss of exon 7
gttgcattcctaatttttggatgctcaattctctgttattcttt-tactctttaatgctctttggacctgaaaccaacaaaatataatctgtttttatttt--ttatagGTGGATGAGAATTTCCTTTTGCGTACTTTTGGAAGATTTGGTCCTATCGCTAGTGTGAAAATAATGTGGCCTAGGACAGAAGAGGAACGGAGGCGACAAA
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----------------------------------gttgctttctctgctgtgcggt-ttagttaaacttgtatgcattgtcttgttagctttacatgctatggtgttagGTCGATGAGAATTTTCTTTTGAGGACATTTGGTCGGTTTGGACCTATTGCTAGTGTCAAGATTATGTGGCCTAGAACAGAAGAGGAACGCAGAAGGCAAA
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G34030.2 (Glycine max), 3'ss of exon 7
gttgcattcctaatttttggatgctcaattctctgttattcttttactctttaatgctctttgg-acctgaaaccaacaaaatataatctgt---ttttattttttatagGTGGATGAGAATTTCCTTTTGCGTACTTTTGGAAGATTTGGTCCTATCGCTAGTGTGAAAATAATGTGGCCTAGGACAGAAGAGGAACGGAGGCGACAAA
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----------------------gttagagtgtcccctcaataaatgggctttgttgttctttgggaattaaggacatgttagtctcaccttggcagttttttaattgtagGTTGATGAAAATTTTCTTCTCCGTACTTTTGGAAGATTTGGACCTATTGCTAGTGTGAAGATTATGTGGCCAAGGACAGAGGAGGAGAGAAGGCGGCAAA
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G15820.1 (Glycine max), 3'ss of exon 3
gttgcattcctaatttttggatgctcaattctctgttattcttttactctttaatgctctttggacctgaaaccaacaaaa----tataatctgtttttattttttatagGTGGATGAGAATTTCCTTTTGCGTACTTTTGGAAGATTTGGTCCTATCGCTAGTGTGAAAATAATGTGGCCTAGGACAGAAGAGGAACGGAGGCGACAAA
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----------------------gtcagagtgtcccctcaatagatggactttgttgttctttgagaattaaggagatgttagtctcatcatcgcagttttgtaattgtagGTTGATGAAAATTTTCTTCTCCGTACTTTTGGAAGATTTGGACCTATTGCTAGTGTGAAGATTATGTGGCCAAGAACAGAGGAGGAGAGAAGGCGGCAAA
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 6
gttgcattcctaatttttggatgctcaattctctgttattcttttactctttaatgctctttggacctgaaaccaacaaaatataatctgtttttattttttatagGTGGATGAGAATTTCCTTTTGCGTACTTTTGGAAGATTTGGTCCTATCGCTAGTGTGAAAATAATGTGGCCTAGGACAGAAGAGGAACGGAGGCGACAAA
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---gtgttttttcttttcttac-ttggatcatatgttgttttctctcgccattgtattctt-------aatattcataaggtataat----tttatgctcacgtagGTTGATGAGAATTTCCTTCTGCGCACTTTCGGAAGATTTGGGCCCATAGCTAGTGTCAAGATTATGTGGCCAAGAACAGATGAGGAGAAGAGGCGACAAA
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G10800.1 (Arabidopsis thaliana), 3'ss of exon 6
-gttgcattcctaatttttggatgctca-attctctgttattcttttactctttaatgctctttggacctgaaaccaacaaaatataatctgtttttattttttatagGTGGATGAGAATTTCCTTTTGCGTACTTTTGGAAGATTTGGTCCTATCGCTAGTGTGAAAATAATGTGGCCTAGGACAGAAGAGGAACGGAGGCGACAAA
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gtttgttctcatccaacttaaatacctgcgttgttttccatagctatatatcataattttcttcc--cttg---cc--taaaacttttgtggtattgtctttttttagGTTGATGAAAATTTTCTTCTGCGGACTTTTGGAAGATTTGGGCCAATAGCTAGTGTTAAAATTATGTGGCCAAGAACAGAGGAGGAGAAAAGGCGAGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgctctttggacctgaaaccaacaaaatataatctgtttttattttttatagGTGGATGAGAATTTCCTTTTGCGTACTTTTGGAAGATTTGGTCCTATCGCTAGTGTGAAAATAATGTGGCCTAGGACAGAAGAGGAACGGAGGCGACAAA
ctttaat putative branch site (score: 4)
tctgtttttatttttt putative PPT
aaaccaacaaaatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgcattcctaatttttggatgctcaattctctgttattcttttactctttaatgctctttggacctgaaaccaacaaaatataatctgtttttattttttatagGTGGATGAGAATTTCCTTTTGCGTACTTTTGGAAGATTTGGTCCTATCGCTAGTGTGAAAATAATGTGGCCTAGGACAGAAGAGGAACGGAGGCGACAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA