Sequence
atgc intronic sequence ATGC exonic sequence...tgatcgtgctttgacctttgccatagatccattactgctttcgtcggtttgtttgttttctatagattgatcctttcaaatattgattatgttcatgcagATCCATCTGGTTTCATCCTGTTTCCTCTTGTCATTCACTCTTTTGACCTGGTAATATCATCGGTTGGAATATTTTCAATAAGGGGGACACGTGACTCTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 3'ss of exon 8
-tgatcgtgctttgacctttgccatagatccattactgctttcgtcggtttgtttgttttctatagattgatcctttcaaatattgattat--gttcatgcagATCCATCTGGTTTCATCCTGTTTCCTCTTGTCATTCACTCTTTTGACCTGGTAATATCATCGGTTGGAATATTTTCAATAAGGGGGACACGTGACTCTGG
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gtgcctg-gttttgagtaaaatcg-agattcatcttttcttctg-caataacttttttttggtaatatttctactttataatcagcattctttgctaatgcagATCCCTCAGGCTTTATACTGTTTCCTCTTGTTGTTCATTCATTTGATCTGGTGATCTCATCAGTTGGAATACTCTCAATTCGGGGAACACGTGACTCTGG
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G00350.1 (Glycine max), 3'ss of exon 8
tgatcgtgctttgacctttgccata--gatccattactgctttcgtcggtttgtttgttttctatagat--tgatcctttcaaatattgattatgttcatgcagATCCATCTGGTTTCATCCTGTTTCCTCTTGTCATTCACTCTTTTGACCTGGTAATATCATCGGTTGGAATATTTTCAATAAGGGGGACACGTGACTCTGG
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-gcaagtaact-gagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGATAGTTTCATCAGCTGGAATATTTTCTATTAGGGGTACACGTGAAACTGG
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G24120.4 (Glycine max), 3'ss of exon 7
---------tgatcgtgc-tttgacctttgccata--gatccattactgctttcgtcggtttgtttgttttctat--agattgatcctttcaaatattgattatgttcatgcagATCCATCTGGTTTCATCCTGTTTCCTCTTGTCATTCACTCTTTTGACCTGGTAATATCATCGGTTGGAATATTTTCAATAAGGGGGACACGTGACTCTGG
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gtaaaattgcaggcaagtacttgagttacaccattttgtccctttcttgcttacttttggttatcagacttgtattcatgctcatctaatatgatgttttctcttttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGATAGTTTCATCAGCTGGAATATTTTCTATCAGGGGTACACGTGAAACTGG
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G24120.2 (Glycine max), 3'ss of exon 8
tgatcgtgctttgacctttgccata--gatccattactgctttcgtcggtttgtttgttttctat--agattgatcctttcaaatattgattatgttcatgcagATCCATCTGGTTTCATCCTGTTTCCTCTTGTCATTCACTCTTTTGACCTGGTAATATCATCGGTTGGAATATTTTCAATAAGGGGGACACGTGACTCTGG
| || ||| || | |||| | || || ||||| | | | || | | || ||| | | ||| | || || | | || | ||||||||||||| |||||| ||||||||||||| ||||||| || || ||| || | ||||| | |||||||||||| || ||||| |||||||| ||||
-gcaagtactt-gagttacaccattttgtccctttcttgcttacttttggttatcagacttgtattcatgctcatctaatatgatgttttctcttttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGATAGTTTCATCAGCTGGAATATTTTCTATCAGGGGTACACGTGAAACTGG
upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 9
-----------------------------------------------------------------------tgatcgtgctttgacctttgccatagatccattactgctttcgtcggtttgtttgttttcta--tagattgatcctttcaaatattgattatgt-tcatgcagATCCATCTGGTTTCATCCTGTTTCCTCTTGTCATTCACTCTTTTGACCTGGTAATATCATCGGTTGGAATATTTTCAATAAGGGGGACACGTGACTCTGG
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gtttgcgaggcatcttgattttattttaaagagttgtactgttggtatttttagcaataaaattgcaaggctagttatactgtggtcaaactagcagaaagggttttagagttacctttctttttgcttcatgatttttttatttcttactcaactttttcgtgtatcatgcagATCCATCTGGTTTTATTTTATTTCCTCTAGTTGTTCACTCGTTTGACTTGGTAATATCATCAATTGGTATTCTATCGATCAAAGGAACTCGCAATGCTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtttgtttgttttctatagattgatcctttcaaatattgattatgttcatgcagATCCATCTGGTTTCATCCTGTTTCCTCTTGTCATTCACTCTTTTGACCTGGTAATATCATCGGTTGGAATATTTTCAATAAGGGGGACACGTGACTCTGG
tattgat putative branch site (score: 3)
tttcaaatattgatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatcgtgctttgacctttgccatagatccattactgctttcgtcggtttgtttgttttctatagattgatcctttcaaatattgattatgttcatgcagATCCATCTGGTTTCATCCTGTTTCCTCTTGTCATTCACTCTTTTGACCTGGTAATATCATCGGTTGGAATATTTTCAATAAGGGGGACACGTGACTCTGG
- - - tgctttg
- - - - - - - cctttgc
- - - - - - - - - - - - - - ccattac
- - - - - - - - - - - - - - - - - -tgctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaatat