Sequence
atgc intronic sequence ATGC exonic sequence...ttcttcagtgttcagctgtattcatgagtttactcagctttaattgctgtttatgtattcatgcatcaatctgtgtgtctgattttgacatttgtctcagAATATAGTTTTATCAGGAGGATCAACCATGTTCAAGGACTTCCACAGAAGGTTGCAGCGTGATGTAAAAAAAATTGTGGATGCTCGGGTTCTTGCTTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G305332_T01 (Zea mays), 3'ss of exon 2
ttcttcagtgttcagctgtattcatgagtttactcagctttaattgctgtttatgtattcatgcatcaatctgtgtgtctgattttgacatttgtctcagAATATAGTTTTATCAGGAGGATCAACCATGTTCAAGGACTTCCACAGAAGGTTGCAGCGTGATGTAAAAAAAATTGTGGATGCTCGGGTTCTTGCTTCTG
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--gtgctttcttcaaac-tctgcatggatatctaagatgggaagtgatatttgtgaatgca-gtgacattttat----cagaattctactttt-ttgcagAATATAGTATTATCTGGTGGATCTACCATGTTTAAAGACTTCCACAAGAGACTCCAAACTGATATAAAGAAGATAGTGGATGACCGTGTTGCTGCGACTA
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G136662_T01 (Zea mays), 3'ss of exon 6
ttcttcagtgttcagctgtattcatgagtttactcagcttt--aattgctgtttatgtattcatgcatcaatctgtgtgtctgattttgacatttgtctcagAATATAGTTTTATCAGGAGGATCAACCATGTTCAAGGACTTCCACAGAAGGTTGCAGCGTGATGTAAAAAAAATTGTGGATGCTCGGGTTCTTGCTTCTG
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-----gtgctttcatcaaactctgcatgtttatctaagatgggaagtgatgtttgtgaatgc-tgtgacatt-----tatcagaattctactttt--tgcagAATATAGTATTATCTGGTGGATCTACCATGTTTAAAGACTTCCACAAGAGACTCCAAACTGATATAAAGAAGATAGTGGATGACCGTGTTGCTGCGACTA
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G13810.1 (Glycine max), 3'ss of exon 6
ttcttcagtgttcagctgtattcatg--agtttactcagctttaattgctgtttatgtattcatgcatcaatctgtgtgtctgattttgacatttgt--ctcagAATATAGTTTTATCAGGAGGATCAACCATGTTCAAGGACTTCCACAGAAGGTTGCAGCGTGATGTAAAAAAAATTGTGGATGCTCGGGTTCTTGCTTCTG
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atatttaatttctgatcatatgaatttcaagccctttag-tttacatgttcttaatgattgaattcttc---tcctctttcctattttgtcttttttacttcagAATGTAGTGTTGTCTGGAGGTTCAACCATGTTCAAGGATTTTCACAGGAGGTTGCAACGTGATCTAAAAAAAATAGTGGATGCTCGTGTACTTTTATCTG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G30630.1 (Glycine max), 3'ss of exon 6
ttcttcagtgttcagctgtattcatg--agtttactcagctttaattgctgtttatgtattcatgcatcaatctgtgtgtctgattttgacatttgt--ctcagAATATAGTTTTATCAGGAGGATCAACCATGTTCAAGGACTTCCACAGAAGGTTGCAGCGTGATGTAAAAAAAATTGTGGATGCTCGGGTTCTTGCTTCTG
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atatttaatttctgatcatataaatttcaagccctttag-tttacatgttcttaatgattgaattcttcacctctt---tcctattttgtcttttttacttcagAATGTAGTGTTGTCTGGAGGTTCAACCATGTTCAAGGATTTTCACAGGAGGTTGCAACGTGATCTAAAAAAAATAGTGGATGCTCGTGTCCTTTTATCTG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G13780.1 (Glycine max), 3'ss of exon 6
ttcttcagtgttcagctgtattcatg--agtttactcagctttaattgctgtttatgtattcatgcatcaatctgtgtgtctgattt-tgacatttgtctcagAATATAGTTTTATCAGGAGGATCAACCATGTTCAAGGACTTCCACAGAAGGTTGCAGCGTGATGTAAAAAAAATTGTGGATGCTCGGGTTCTTGCTTCTG
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atatttaatttttgatcatacgaatttcaagccctttag-ttaacttgttcttaatg-attgatctctttatctat-tgcctattttgtcttttttatttcagAATATCGTGTTGTCTGGAGGTTCAACAATGTTCAAGGATTTTCACAGGAGGTTGCAACGTGATCTTAAGAAAATAGTGGACGCCCGTGCCCTTTCATCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctgtttatgtattcatgcatcaatctgtgtgtctgattttgacatttgtctcagAATATAGTTTTATCAGGAGGATCAACCATGTTCAAGGACTTCCACAGAAGGTTGCAGCGTGATGTAAAAAAAATTGTGGATGCTCGGGTTCTTGCTTCTG
ttttgac putative branch site (score: 3)
tttgtctc CT-rich tract
ttatgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttcagtgttcagctgtattcatgagtttactcagctttaattgctgtttatgtattcatgcatcaatctgtgtgtctgattttgacatttgtctcagAATATAGTTTTATCAGGAGGATCAACCATGTTCAAGGACTTCCACAGAAGGTTGCAGCGTGATGTAAAAAAAATTGTGGATGCTCGGGTTCTTGCTTCTG
- - - - - ttcagct
- - - - - - - - - - - catgagt
- - - - - - - - - - - - - - - - - - - - - - tgctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtctga