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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttcagctttttattcttattttttccattctttaattaaaaatcatttgaaaccaaatagcaacccataggtccttataaataatttctacacagGCTTGTGCTTCTCTAGAACCAAACTATCAACCACCAGTTACTTTTATTGTGGTTCAAAAACGACATCATACCCGATTGTTCGCTAACAACCACAGGGACC

Basic information

species Vitis vinifera
transcript Vv05s0020g04190.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 17
gtgagtttcagctttttattcttattttttccattctttaattaaaaatcatttgaaaccaaatagcaacccataggtccttataaata-atttctacacagGCTTGTGCTTCTCTAGAACCAAACTATCAACCACCAGTTACTTTTATTGTGGTTCAAAAACGACATCATACCCGATTGTTCGCTAACAACCACAGGGACC
                  |    |||  || | |  |   || | || |  |   |   ||  |   ||| |||     |  |  |||| |||| |   ||||| ||||||||| ||||||||||||||||||| ||||| ||||| || || || |||||| |||| |||||||| ||||| || || |||||||||||| 
-----------------gtcagaattgattacttattcccatcataagttctagtaggtcattttataacacatgttctcacaagaatatatttatttgcagGCATGTGCTTCTTTAGAACCAAACTATCAACCTCCAGTAACTTTCATAGTTGTACAAAAAAGACACCATACCCGGTTGTTTGCAAATAACCACAGGGACA

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 9
gtgagtttcagctttttattcttattttttccattctttaattaaaaatcatttgaaaccaaatagcaacccataggtccttataaataatttctacacagGCTTGTGCTTCTCTAGAACCAAACTATCAACCACCAGTTACTTTTATTGTGGTTCAAAAACGACATCATACCCGATTGTTCGCTAACAACCACAGGGACC
                  |    |||  || | |||||  || |||  |  |   |   ||  |   ||| | |  | ||  |  |||| | | |   ||||| || |||||| ||||||||||||||||||| ||||| ||||| || || || |||||| |||| ||||| || ||||| || || |||||||||||| 
-----------------gtcagaattgattactttcttccatcaaatgttctaataggtcattttataacacgt--gcccacaagaata-tatatttgcagGCATGCGCTTCTTTAGAACCAAACTATCAACCTCCAGTAACTTTCATAGTTGTACAAAAAAGACACCATACTCGGTTGTTTGCAAATAACCACAGGGACA

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 18
gtgagtttcagctttttattcttattttttccattctttaattaaaaatcatttgaaaccaaatagcaacccataggtccttataaataatttctacacagGCTTGTGCTTCTCTAGAACCAAACTATCAACCACCAGTTACTTTTATTGTGGTTCAAAAACGACATCATACCCGATTGTTCGCTAACAACCACAGGGACC
                     | |   |  |  |||| | || | |   || |||    |  ||     |       | || | || | || |||    |||| ||||||||  ||||||||||||| || || ||||| ||||| || || || |||||| ||||||||||||| || || || |||||| |||||||| 
--------------------gtcaggatcact-ttctctcatcata---cacttgttttcttattatgtc-----aattctgagaagttatatctgtgtagGCATGTGCTTCCTTAGAACCAAACTACCAGCCTCCAGTAACTTTCATAGTTGTGCAAAAAAGACATCATACCCGGTTATTTGCAAACAACTACAGGGACA

upper sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 18
gtgagtttcagctttttattcttattttttccattctttaattaaaaatcatttgaaaccaaatagcaacccataggtccttataaataatttctacacagGCTTGTGCTTCTCTAGAACCAAACTATCAACCACCAGTTACTTTTATTGTGGTTCAAAAACGACATCATACCCGATTGTTCGCTAACAACCACAGGGACC
               | |   | | ||| ||   |  |  | |     || | | |   |||| |        || || || | || | || |||    |||| ||||||||  ||||||||||||| || || ||||| || || || || || |||||| ||||||||||||| || || || |||||| |||||||| 
--------------gtcaggatcactttctctcattatacacttgttttcttattatgtcaaaga--------tatgttctgagaagttatatctgtgtagGCATGTGCTTCCTTAGAACCAAACTACCAGCCTCCAGTAACATTCATAGTTGTGCAAAAAAGACATCATACCCGGTTATTTGCAAACAACTACAGGGACA

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|37188618|gb|CF607967.1|CF607967
EST:     AAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAA                         GCTTGTGCTTCTCTAGAGCCAAACTATCAACCACCAGTTACTTTTATTGTG
genomic: AAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAAgtgagtttca ... ttctacacagGCTTGTGCTTCTCTAGAACCAAACTATCAACCACCAGTTACTTTTATTGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcatttgaaaccaaatagcaacccataggtccttataaataatttctacacagGCTTGTGCTTCTCTAGAACCAAACTATCAACCACCAGTTACTTTTATTGTGGTTCAAAAACGACATCATACCCGATTGTTCGCTAACAACCACAGGGACC
                                            tttctac  CT-rich tract
                                  ttataaataatttcta  TA-rich tract