Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcattcaggattcaaccattcattgctatttgcaacttcactgctgtaacctcttagtttcttatttataattttcattgccttgatgaactctcaaactgtagGGGGAGAATAAAGGATTTCTTGTTTGTAAGAAGAAGATGGCAACTTCTCCTGAGATGCTTTGTTGCTTATGTCCTCCCCCTTTTCAACAGTTTCTTGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04060.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 3'ss of exon 9
--------------------------------------------------------------gtaagttcattcaggattcaaccattcattgctatttgcaacttcact--gctgtaacctcttagtttcttatttataattttcatt--gccttgatgaactctcaaact-gtagGGGGAGAATAAAGGATTTCTTGTTTGTAAGAAGAAGATGGCAACTTCTCCTGAGATGCTTTGTTGCTTATGTCCTCCCCCTTTTCAACAGTTTCTTGAGA
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gtactgattaactttgtggctagtagctaacgaggaagtgatcaatgtgaaatttttcttttcttcccacatcccacatcccactttttttgtattttgtttgttttgttttgttttgttttttctttttcctctcactatttttcatttggacgtgctatatatttggttttgtagGGCGACAACAAAGGTTTTCTGGTGTGTAAGAAGAAAATGGCAACTTCTCCCGAAATGCTGTGCTGTTTCTGCCCGGTTCCGTTTAAACAGTTTTTGGAGA
upper sequence: Vv11s0016g04060.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S208_44V6.1 (Physcomitrella patens), 3'ss of exon 8
gtaagttcattcaggattcaaccattcattgctatttgcaacttcactgctgtaacctcttagtttcttatttataattttcattgccttgatgaactctcaaactgtagGGGGAGAATAAAGGATTTCTTGTTTGTAAGAAGAAGATGGCAACTTCTCCTGAGATGCTTTGTTGCTTATGTCCTCCCCCTTTTCAACAGTTTCTTGAGA
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gttttcttgtgtggaagaagaaaatggcaacttctcctgaaatgctgtgctgtttctgcccggttttgttttta-aacagACGTTTTGGAGATGG--TCACAAA-TATGAAGTTCGA-TGAAGAGCCAA------ACCAGAGCAAGCTCGTT-CTACTCTTCGATTCCATCTTGGATCCTAATCCTACTGT-------------------
upper sequence: Vv11s0016g04060.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S176_7V6.1 (Physcomitrella patens), 3'ss of exon 8
gtaagttcattcaggattcaaccattcattgctatt-tgcaacttcactgctgtaacctcttagtttcttatttataattttcatt-gccttgatgaactctcaaactgtagGGGGAGAATAAAGGATTTCTTGTTTGTAAGAAGAAGATGGCAACTTCTCCTGAGATGCTTTGTTGCTTATGTCCTCCCCCTTTTCAACAGTTTCTTGAGA
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-----ttttgtagggcgacaacaaaggttttctggtgtggaagaagaaaatggcaacttctcctgaaattctgtgctgtttttgctcggttccgtttttaaacagACATTTTGGAGATGGTCGCAAATATGAAGTTCG----ATGAAGAGCCAAACCACGGCAAGCTCGTTCTACTCTTTGATTCCATCTTGAGTCCTA-ATCCTACTGT-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctcttagtttcttatttataattttcattgccttgatgaactctcaaactgtagGGGGAGAATAAAGGATTTCTTGTTTGTAAGAAGAAGATGGCAACTTCTCCTGAGATGCTTTGTTGCTTATGTCCTCCCCCTTTTCAACAGTTTCTTGAGA
ccttgat putative branch site (score: 5)
ctctc putative PPT
tagtttcttatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcattcaggattcaaccattcattgctatttgcaacttcactgctgtaacctcttagtttcttatttataattttcattgccttgatgaactctcaaactgtagGGGGAGAATAAAGGATTTCTTGTTTGTAAGAAGAAGATGGCAACTTCTCCTGAGATGCTTTGTTGCTTATGTCCTCCCCCTTTTCAACAGTTTCTTGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG