Sequence
atgc intronic sequence ATGC exonic sequencegttagcagtgtgtttgtgttcccatattctggctgagagtctggttagaaaattgaagggcattcctgatggattttgcttgcagGAAACATAAGGGTGTTTTGCCGATGTAGGCCACTAAACGGTGAAGAAATTGCAGCTGGAGCTTCAATGGCAATTGACTTTGAATCTGCTAAGGACGGCGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0027g00080.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os12g42160.1 (Oryza sativa), 3'ss of exon 7
----------------gttagcagtgtgtttgtgttccca-tattctggctgagagtc-tggttagaaaattgaagggcattcc-tgatggattttgcttgcagGAAACATAAGGGTGTTTTGCCGATGTAGGCCACTAAACGGTGAAGAAATTGCAGCTGGAGCTTCAATGGCAATTGACTTTGAATCTGCTAAGGACGGCGA
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gttggtttgatttgttgctatttgttggtttgatttattgctactgcaacagatggtgataataatagacttactaattactatgtcttgcgtattgat--cagGTAACATAAGAGTTTTTTGCCGGTGTCGGCCATTAAATGGTGAAGAAATTGAAGAAGGGGCTTCGATGGCAGTTGATTTTGAATCTGCAAAAGACGGCGA
upper sequence: Vv19s0027g00080.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G18590.1 (Glycine max), 3'ss of exon 9
----gttagcagtgtgtttgtgttcccatattctggctgagagtctggttagaaaattgaagggcattc-ctgatggattttgctt-gcagGAAACATAAGGGTGTTTTGCCGATGTAGGCCACTAAACGGTGAAGAAATTGCAGCTGGAGCTTCAATGGCAATTGACTTTGAATCTGCTAAGGACGGCGA
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gtaagttgtgaagctgatcttgctttcatagatttggatggaatataaata--atatgcatgatcactaactaattaatccttcttcacagGAAACATAAGGGTCTTTTGCCGTTGTAGGCCTCTCAATGCCGAAGAGATATCTGCAGGAGCAACAATGGCCTTAGATTTTGAATTTGCGAAAGATGGTGA
upper sequence: Vv19s0027g00080.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G40350.1 (Glycine max), 3'ss of exon 9
----gtta-gcagt-gtgtttgtgttcccatattctggctgagagtctggttagaaaattgaagggc-----attcctgatggattttgctt----gcagGAAACATAAGGGTGTTTTGCCGATGTAGGCCACTAAACGGTGAAGAAATTGCAGCTGGAGCTTCAATGGCAATTGACTTTGAATCTGCTAAGGACGGCGA
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gtaagttgtgcagttgattttgttttcatagatttggattggatgggatataaataatatgcatgatcattgatcactaactaattatccttcttcacagGAAACATAAGGGTCTTTTGCCGTTGTAGGCCTCTCAACACCGACGAGATATATGCAGGAGCAACAGTGGCCTTAGATTTTGAATCTGCGAAAGATGGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggctgagagtctggttagaaaattgaagggcattcctgatggattttgcttgcagGAAACATAAGGGTGTTTTGCCGATGTAGGCCACTAAACGGTGAAGAAATTGCAGCTGGAGCTTCAATGGCAATTGACTTTGAATCTGCTAAGGACGGCGA
tcctgat putative branch site (score: 3)
ttttgctt putative PPT
ttagaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagcagtgtgtttgtgttcccatattctggctgagagtctggttagaaaattgaagggcattcctgatggattttgcttgcagGAAACATAAGGGTGTTTTGCCGATGTAGGCCACTAAACGGTGAAGAAATTGCAGCTGGAGCTTCAATGGCAATTGACTTTGAATCTGCTAAGGACGGCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT