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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGATCCTGACATTCTCCATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatcattacttggtagttgtttcttcatttttcctttaggtgggagttaggattggaggggggaggaggtgggaggtagtgttttttctttagtcaagaggtgcattgtccctttatgttgcatttctgtgggaatctttgttattcatggttattatttattttgggtgtgcatag

Basic information

species Vitis vinifera
transcript Vv05s0077g01200.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0077g01200.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA07G37040.1 (Glycine max), 5'ss of exon 8
ATGATCCTGACATTCTCCATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatcattacttggtagttgtttcttcatttttcctttaggtgggagttaggattggaggggggaggaggtgggaggtagtgttttttctttagtcaagaggtgcattgtccctttatgttgcatttctgtgggaatctttgttattcatggttattatttattttgggtgtgcatag
||||||| ||  |||    ||  |||||||||||||| ||| |||| |||||||| |||||||||||||||  ||||  |||  |  |  || |||    |  |    | ||||| |   |      || ||     | | ||| |||  |       |||   || | |     | | |  |  || | ||| |                                                        
ATGATCCAGAGGTTCCTTGTGTTCAACATCATCGTAAATTCTTAAAGGAGCATGTTGTTTTTAAGGAGgtatggtat-gttatctttttatt-tttggagagctgcaatataggtagatctgtactctgtag-----atgtggtaggaaat-------tttacctaataatattttacctactttctct-tgtag--------------------------------------------------------

upper sequence: Vv05s0077g01200.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA17G03570.1 (Glycine max), 5'ss of exon 10
ATGATCCTGACATTCTCCATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatcattacttggtagttgtttcttcatttttcctttaggtgggagttaggattggaggggggaggaggtgggaggtagtgttttttctttagtcaagaggtgcattgtccctttatgttgcatttctgtgggaatctttgttattcatggttattatttattttgggtgtgcatag
||||||| ||  |||    ||  |||||||||||||| ||| |||| |||||||| |||||||||||||||  ||||| |  |||  ||      | ||  |    |    | || ||   |||   || |    | || | |||| ||  | |   ||| | |||   || |  |    | |    |  ||| |                                                        
ATGATCCAGAGGTTCCTTTTGTTCAACATCATCGTAAATTCTTAAAGGAGCATGTTGTTTTTAAGGAGgtatggtatcctatcttttta------tttttgtagagctgcaaagtagg---tagatctgtactctgtag-atgtggtagaaaat---tttacctta--taatattttacctattttctcttgtag--------------------------------------------------------
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|32248391|gb|CD714210.1|CD714210
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|32267561|gb|CD716524.1|CD716524
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|30324963|gb|CD008225.1|CD008225
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|110711495|gb|EE088040.1|EE088040
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|32272042|gb|CD721201.1|CD721201
EST:     ATGGCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|32270535|gb|CD719694.1|CD719694
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|32269076|gb|CD718235.1|CD718235
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|30326297|gb|CD009559.1|CD009559
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|32270540|gb|CD719699.1|CD719699
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|30325174|gb|CD008436.1|CD008436
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|30324365|gb|CD007627.1|CD007627
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|30325851|gb|CD009113.1|CD009113
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
EST: gi|30327653|gb|CD010915.1|CD010915
EST:     ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAG                         GCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC
genomic: ATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatc ... gtgtgcatagGCTATACCAATCAAAGATCCCATGGTCCTGTCAAAGATACACCAGACTTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGATCCTGACATTCTCCATGCCCAACATCATCGTAATTTCCTAAAAGAGCATGTGGTTTTTAAGGAGgtaatgtatcattacttggtagttgtttcttcatttttcctttaggtgggagttaggattggaggggggaggaggtgggaggtagtgttttttctttagtcaagaggtgcattgtccctttatgttgcatttctgtgggaatctttgttattcatggttattatttattttgggtgtgcatag

- - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG