Sequence
atgc intronic sequence ATGC exonic sequence...ctttttcattatgttatctgtttaccatggttttattttttgggcatttatatatgaagctgcaggactgtgtaatgttaattctttgattgctttacagGAGGCACATTGCTGTAGTCAGTGGGGCCATGACTTTCGCCCAGATTACAAAAATCTTGGCATCTTAAAGACTCAGTTTCCTGATGTTCCAGTAGTTGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0087g00070.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os11g48090.3 (Oryza sativa), 3'ss of exon 5
ctttttcattatgttatctgtttac-catggttttattttttgggcatttatatat---gaagctgcagg----actgtgtaatgttaattctttgattgctttacagGAGGCACATTGCTGTAGTCAGTGGGGCCATGACTTTCGCCCAGATTACAAAAATCTTGGCATCTTAAAGACTCAGTTTCCTGATGTTCCAGTAGTTGCTT
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-----tgagcata--gctagttgacatatgttttaagcagttaagcacatgtgtatctagagtctgcgattaccaatttatcattgtaattaagtg-ttatcatgcagGAGGCACACTGCTGTAGTCAATGGGGCCATGATTTTCGCCCAGACTACAAGAATCTTGGCATTTTAAAGGTCCAGTTTCCCAGTGTTCCTATGATAGCTT
upper sequence: Vv02s0087g00070.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G451856_T02 (Zea mays), 3'ss of exon 5
ctttttcattatgttatctgtt-taccatggttttattttttgg--gcatttatatatgaagctgc--aggactgtgtaatgttaattctttgattgctttacagGAGGCACATTGCTGTAGTCAGTGGGGCCATGACTTTCGCCCAGATTACAAAAATCTTGGCATCTTAAAGACTCAGTTTCCTGATGTTCCAGTAGTTGCTT
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---ctcagctagggttactgtagcactgtagctctctctctcactttcaagcacaatggaatctatctataattgtcagctgcaaatgac--agttctcatgcagGAGGCTCACTGCTGTAGCCAATGGGGTCATGATTTTCGTCCTGACTACAAGAATCTTGGCATTTTGAAAATTCAATTTCCCAGTGTTCCAATGATAGCTT
upper sequence: Vv02s0087g00070.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G34860.1 (Glycine max), 3'ss of exon 4
ctttttcattatgttatctgtttacca-tggttttat--tttttgggcatttatatatgaagctgcaggactgtgtaatgttaattctttgattgctttacagGAGGCACATTGCTGTAGTCAGTGGGGCCATGACTTTCGCCCAGATTACAAAAATCTTGGCATCTTAAAGACTCAGTTTCCTGATGTTCCAGTAGTTGCTT
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--gactcactatttcctctatccttcaacagtctcagagtttcatagcaatgctgtgtta-gttgtatgacaatataattcctggttatggtttgcattgcagGAAGCACATTGCTGTAGTCAATGGGGTCATGACTTTCGACCTGACTACAAGAGCCTCAGTATTCTCAAGACACAGTTCCCTCGTGTTCCTATTGTTGCTT
upper sequence: Vv02s0087g00070.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G31360.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------------------ctttttcattatgttatctgtttaccatggttttat-tttttgggcatttatatatgaagc----tgcaggactgtgtaatgttaattctttgattgctttacagGAGGCACATTGCTGTAGTCAGTGGGGCCATGACTTTCGCCCAGATTACAAAAATCTTGGCATCTTAAAGACTCAGTTTCCTGATGTTCCAGTAGTTGCTT
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gtaagtctctcctagttttagtttcttactcggaaattgtgctctgccacctatcttctcactctctggctttagtttatttggatatatccgcaccgttaaacagaaaacctactttatgaatgatcaatttcctatgtttggtttctttgcagGAGGCTCATTGTTGTAGTCAGTGGGGTCATGATTTTCGCCCTGATTACAAGAACTTAAGCATTCTGAAAACCCAGTTTCCCAAAGTTCCCATGGTGGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttatatatgaagctgcaggactgtgtaatgttaattctttgattgctttacagGAGGCACATTGCTGTAGTCAGTGGGGCCATGACTTTCGCCCAGATTACAAAAATCTTGGCATCTTAAAGACTCAGTTTCCTGATGTTCCAGTAGTTGCTT
ttgcttt CT-rich tract
taatgttaattcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttttcattatgttatctgtttaccatggttttattttttgggcatttatatatgaagctgcaggactgtgtaatgttaattctttgattgctttacagGAGGCACATTGCTGTAGTCAGTGGGGCCATGACTTTCGCCCAGATTACAAAAATCTTGGCATCTTAAAGACTCAGTTTCCTGATGTTCCAGTAGTTGCTT
- - - - - - - - - - - - ccatggt
- - - - - - - - - - - - - - - - - - - - - ggcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgaagct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caggact