Sequence
atgc intronic sequence ATGC exonic sequence...tttaactggaaattgcatgatatggtactagctcctagaaggcctgttcataagtgaaatttactggcattgttgatgaaatctctatttgtttcttcagGCCCTGTTATGACCAAATTCACTATTGCATTGAGAGAGATTGGGACATACAAGGAAGTTCTTCGCTCCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 3'ss of exon 3
---tttaactggaaattgcatgatatggtactagctcctagaag-gcctgttcataagtgaaatttactggcattgttgatgaaatctctatttgtt-tcttcagGCCCTGTTATGACCAAATTCACTATTGCATTGAGAGAGATTGGGACATACAAGGAAGTTCTTCGCTCCCAG
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cttttcatcccttaattac-tgttttcatttta----ctagaactgtcttgtctttagtatggtcatttcctctaatatgcatactgaacatttctcctctccagGACCTGTTATGACCAAATTTACAATTGCCTTGAGAGAACTAGGCACATACAAGGAAGTCCTCCGCTCCCAG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G872204_T02 (Zea mays), 3'ss of exon 3
tttaactggaaattgcatgatatggtactagctcctagaaggcctgttcataa-gtga--aatttactggcattgttgatgaaatctctatttgtttcttcagGCCCTGTTATGACCAAATTCACTATTGCATTGAGAGAGATTGGGACATACAAGGAAGTTCTTCGCTCCCAG
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--tttctcattatttattactctttccccacataagagtagagttgagctcaatgtcgtcagttcctctactgagcatactgaattttcatct-tctttccagGGCCTGTAATGACCAAATTTACAATTGCCTTAAGAGAAATTGGAACATACAAGGAAGTCCTGCGCTCCCAG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G059225_T02 (Zea mays), 3'ss of exon 3
-----------------------------------------tttaactggaaatt-gcatgata-----tggtactagctcc-tagaaggcctgttcataagtgaaatttactggcattgttg---atgaaatctctatttgtttcttcagGCCCTGTTATGACCAAATTCACTATTGCATTGAGAGAGATTGGGACATACAAGGAAGTTCTTCGCTCCCAG
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gttagtaatgtggttctcgtgaaaatacatgtattcgaaacttcaatttgtgacaagcatgataactctttctcctgttttcatgttttgcccttttgctttcctgattggttggttctcttgtacatgacaacatttaccttttttgcagGGCCTGTCATGACCAAATTTACAATTGCTTTAAGAGAAATTGGAACATACAAGGAAGTATTGCGCTCCCAG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 3
-tttaactggaaattgcatgatatggtactagctcctagaaggcctgttcataagtgaaatttactggcattgt--tgatgaaatctctatttgtttcttcagGCCCTGTTATGACCAAATTCACTATTGCATTGAGAGAGATTGGGACATACAAGGAAGTTCTTCGCTCCCAG
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ttgggactg---acttcataatttgattttaagtctgtatgttacctttaactctaaaagtctaatggtgatgaaatgatttatgattgagtttctattccagGCCCTGTTATGACCAAATTCACCATAGCCTTAAGAGAAATTGGGACATATAAGGAAGTCCTTCGATCACAG
upper sequence: Vv01s0150g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 3
-tttaactggaaattgcatgatatggtactagctcctagaaggcctgttcataagtgaaatttactggcattgt--tgatgaaatctctatttgtttcttcagGCCCTGTTATGACCAAATTCACTATTGCATTGAGAGAGATTGGGACATACAAGGAAGTTCTTCGCTCCCAG
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actaaactg---acttcataatttgattttaagtctgtatgttacctttaactctaaaagtctaatggtgatgaaatgatttatgactgagtttctattacagGTCCTGTTATGACCAAATTCACCATAGCCTTACGAGAAATTGGTACATACAAGGAAGTTCTTCGATCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcataagtgaaatttactggcattgttgatgaaatctctatttgtttcttcagGCCCTGTTATGACCAAATTCACTATTGCATTGAGAGAGATTGGGACATACAAGGAAGTTCTTCGCTCCCAG
tgttgat putative branch site (score: 4)
tctctatttgtttctt putative PPT
tgaaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaactggaaattgcatgatatggtactagctcctagaaggcctgttcataagtgaaatttactggcattgttgatgaaatctctatttgtttcttcagGCCCTGTTATGACCAAATTCACTATTGCATTGAGAGAGATTGGGACATACAAGGAAGTTCTTCGCTCCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - gcatgat
- - - - - - - - - - - - - - - - - - - - - cctgttc
- - - - - - - - - - - - - - - - - - - - - - - - - -aagtgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttactgg