Sequence
atgc intronic sequence ATGC exonic sequence...tattcaatttgttactttaaactgaaccttcataacatggtagtatttttatggaaatgcttctgaaacttcaatttttttaatcattttttaccttcagCTTGATGATGAGGATTTCAAAGAAGAGCAGAATTCTGTTGCACGTCTTATCCAGATGCTGTATAGTGATGATCCAGATGAGATGTTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03870.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 3'ss of exon 13
---------------tattcaatttgttactttaaactgaaccttcataacatggtagtatttttatggaaatgcttctgaaac-ttcaatttttttaa-----tcattttttacct---tcagCTTGATGATGAGGATTTCAAAGAAGAGCAGAATTCTGTTGCACGTCTTATCCAGATGCTGTATAGTGATGATCCAGATGAGATGTTACAG
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gtaatatacacgcttcattctacaattttctttggcttgttatattgtttc-tgctgctgttcaactgaatcagcgcacacaatattctattttcttatcaagtttacctgttatattgcttagCTTGATGATGAGGATTTTAAGGAGGAACAGAATTCTGTGGCGCGTCTTATTCACATGTTGCACAATGATGACCATGAAGAGATGTTGAAG
upper sequence: Vv04s0023g03870.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA11G08390.1 (Glycine max), 3'ss of exon 12
---------------------------------------------------------tattcaatt--tgttactt-taaactga-accttcataacatggtagta----tttttatggaa-atgcttctgaaacttcaatttttttaatcattttttaccttcagCTTGATGATGAGGATTTCAAAGAAGAGCAGAATTCTGTTGCACGTCTTATCCAGATGCTGTATAGTGATGATCCAGATGAGATGTTACAG
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gtcattttagtaccatgactagtctcatttgtctatttttacaatgcctatttgacttctcccattaatgtcacttatgttcttataaatgtaagacaaaataatacttatttttgtgatccattctccttgcattatacttatttttttccctctcc-cctttagCTGGATGAAGATGATTTCAAAGAGGAGCAGAACTCTGTTTCCCGTCTAATCCAGATGCTTTATAATGATGATCCAGAAGAAATGTTTAAG
upper sequence: Vv04s0023g03870.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA01G36870.1 (Glycine max), 3'ss of exon 12
-------------------------------------------------------tattcaatttgttactttaaactgaaccttcataacatggta----gtatttttatggaaatgcttctgaaa-----cttcaatttttttaatcatttt---------------------------ttaccttcagCTTGATGATGAGGATTTCAAAGAAGAGCAGAATTCTGTTGCACGTCTTATCCAGATGCTGTATAGTGATGATCCAGATGAGATGTTACAG
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gtcatttcagtaaccatgactagtctcatttgtcttgtctattttttacaatgcctatttgacttctcccattaatgtcaccttttataatataatgttacatatgttcttataaatgtcagttaaaataatccttatttttgtgatccattctcctttcattatacttattttttcccctttccccttagCTGGATGAAGATGATTTCAAAGAGGAGCAGAATTCTCTTGCCCGCCTAATTCTGATGCTTTATAATGATGATCCAGAAGAAATGTTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttatggaaatgcttctgaaacttcaatttttttaatcattttttaccttcagCTTGATGATGAGGATTTCAAAGAAGAGCAGAATTCTGTTGCACGTCTTATCCAGATGCTGTATAGTGATGATCCAGATGAGATGTTACAG
ttttaat putative branch site (score: 3)
tcattttttaccttc CT-rich tract
tgaaacttcaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattcaatttgttactttaaactgaaccttcataacatggtagtatttttatggaaatgcttctgaaacttcaatttttttaatcattttttaccttcagCTTGATGATGAGGATTTCAAAGAAGAGCAGAATTCTGTTGCACGTCTTATCCAGATGCTGTATAGTGATGATCCAGATGAGATGTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - aaactga
- - - - - - - - - - - - -accttca
- - - - - - - - - - - - - - - - - -catggta
- - - - - - - - - - - - - - - - - - - - - - - - - - -gaaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgaaac