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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgctgctgctattgtgcttgtgcaagaaatattgcttgcttgtgtgttttcattttttggatacctgttttttgaggggaaaaaaaaaaaaaaaatctaaaatgtgtttatattgtccttagGTCACGACCACCATTTATAATCTTATCCTTGGTAAAGTGTATTGTGATCACCATGGTACAATGCACATACAAGGTAATCACCAACATTCATGCAAACTCA

Basic information

species Vitis vinifera
transcript Vv02s0154g00250.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 7
gtgtgtgctgctgctattgtgcttgtgcaagaaatattgcttgcttgtgtgttttcattttttggatacctgttttttgaggggaaaaaaaaaaaaaaaatctaaaatgtgtttatattgtccttagGTCACGACCACCATTTATAATCTTATCCTTGGTAAAGTGTATTGTGATCACCATGGTACAATGCACATACAAGGTAATCACCAACATTCATGCAAACTCA
                 |         |       || |||| ||        ||||| || |   ||  | | ||            ||| ||     |  |  |||   ||| | || |||| |||||||||| || |||||||||||||||||||| ||| | ||||||||||| ||||| |  ||| |||| | ||||||||  ||| |||| |||| |||| 
-----------------taaaagaaaacggagggaatagctttctaag----cttcatattataagtatttatatt-----aaattctaaataattgttaattgtaatccttttgttttctcct-agGTCACGACTACAATTTATAATCTTATCCTTGGCAAAATATATTGTGATCATCATGGGAACATGGACATCCGAGGTAATCGTCAATATTCGTGCAGACTCC

upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 7
gtgtgtgctgctgctattgtgcttgtgcaagaaatattgcttgcttgtgtgttttcattttttggatacctgttttttgaggggaaaaaaaaaaaaaaaatctaaaatgtgtttatattgtccttagGTCACGACCACCATTTATAATCTTATCCTTGGTAAAGTGTATTGTGATCACCATGGTACAATGCACATACAAGGTAATCACCAACATTCATGCAAACTCA
              | || |  ||| |   | |     |   | |  |   |||  |   ||   |||  | | ||          |||  | ||| || | | | |   |||| | ||   | ||||||||||| || |||||||||||||||||||| ||| | ||||||||||| ||||| |  ||| || | |  ||||||| |||| |||| |||| |||||
----------tcctttttatatttgagagcgga-----ggcaggtaatagctttctaagcttc--atatttatatt----------aaattataaataattgttataatcgtttttgtttctcctagGTCACGACTACAATTTATAATCTTATCCTTGGCAAAATATATTGTGATCATCATGGGAACATGGACGTCCGTGGTAATCGCCAATATTCGTGCAGACTCA

upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G03420.2 (Glycine max), 3'ss of exon 8
gtgtgtgctgctgctattgtgcttgtgcaagaaatattgcttgc-ttgtgtgttttcattttttggatacctgttttttgaggggaaaaaaaaaaaaaaaatctaaaatgtgtttatattgtccttagGTCACGACCACCATTTATAATCTTATCCTTGGTAAAGTGTATTGTGATCACCATGGTACAATGCACATACAAGGTAATCACCAACATTCATGCAAACTCA
                                      |  ||| ||||    |  || | | |   ||    |  | |           ||||  ||   | | |    ||||  |  |    ||||||||| ||||| || ||||||||||||||||| ||| | || |||||||| ||||| |  ||| | ||||  |||||||    | ||||||||| |||||
--------------------------------------gtgtgcattgtaaaatcacactatctat-tattgatcgtatatattctctctaaaattaatgttatgattattgttgtttctactattagGTCACCACCACGATCTATAATCTTATCCTTGGGAAAATATACTGTGATCATCATGGGAACATGGATATACGTGGTAATCGTACATATTCATGCAGACTCA

upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G41940.1 (Glycine max), 3'ss of exon 6
gtgtgtgctgc-----tgctat-tgtgcttgtgcaagaaatattgcttgcttgtgtgtt---ttcattttttggatacctgttttttgaggggaaaaaaaaaaaaaaaatctaaaatgtgtttatattgtccttagGTCACGACCACCATTTATAATCTTATCCTTGGTAAAGTGTATTGTGATCACCATGGTACAATGCACATACAAGGTAATCACCAACATTCATGCAAACTCA
|||||   ||        |||| | |     | |    ||| | ||  | |||||        |    |||   | |  || |  |  |          |||  ||   | |||    ||||  | ||    ||||||||| ||||| || ||||||||||||||||| ||| | || |||||||| ||||| |  ||| | ||||  |||||||    | ||||||||| |||||
gtgtgcattgtaaaatcactatctataaacattccgccaat-tcgcccggttgtgctagcgacttgcctttaataaaattgatcgtatatattctctctaaattaatgttataattgttgttgtttttactattagGTCACCACCACGATCTATAATCTTATCCTTGGGAAAATATACTGTGATCATCATGGGAGCATGGATATACGCGGTAATCGTACATATTCATGCAGACTCA

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|110700214|gb|EE077994.1|EE077994
EST:     GAGTTTTGACCCTTGAGTTTGATGATGGTGAGGTTTTCAAATGGAGCAAG                         GTCACGACCACCATTTATAATCTTATCCTTGGTAAAGTGTATTGTGATCAC
genomic: GAGTTTTGACCCTTGAGTTTGATGATGGTGAGGTTTTCAAATGGAGCAAGgtgtgtgctg ... ttgtccttagGTCACGACCACCATTTATAATCTTATCCTTGGTAAAGTGTATTGTGATCAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttgaggggaaaaaaaaaaaaaaaatctaaaatgtgtttatattgtccttagGTCACGACCACCATTTATAATCTTATCCTTGGTAAAGTGTATTGTGATCACCATGGTACAATGCACATACAAGGTAATCACCAACATTCATGCAAACTCA
                           atctaaa  putative branch site (score: 3)
                                             ttgtcctt  putative PPT
            aaaaaaaaaaaaaaaa  TA-rich tract