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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttcttttggagcatgctttagtttcagttataatattgtcatcgtgtacttgctttctgcattccgctatctaaaatgctcaatgttttattttttaacagGGATCTTATCCTTTCAGTCCTTTTGCTATGCCTTCTCCAAATGGCATTGCTGAGACCTCT

Basic information

species Vitis vinifera
transcript Vv02s0012g02250.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G01740.1 (Glycine max), 3'ss of exon 4
gtattttcttttggagcatgctttagtttcagttataatattgtcatcgtgtacttgctttctgcattccgctatctaaaatgctcaatgttttattttttaacagGGATCTTATCCTTTCAGTCCTTTTGCTATGCCTTCTCCAAATGGCATTGCTGAGACCTCT
||||||| || |  |  || ||||  ||  |||||| ||  ||  ||| |   ||      || |     | |  || ||||          ||||      |||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||| | || 
gtatttt-ttgtaaactatactttc-ttgaagttatcatgctga-atcattagctcatcaactac----tgttgcctcaaat----------ttat------acagGGATCTTATCCTTTTAGTCCTTTTGCCATGCCTTCTCCAAATGGCATTGCTGAGGCATCA

upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G34170.1 (Glycine max), 3'ss of exon 5
gtattttcttttggagcatgctttagtttcagttataatattgtcatcgtgtacttgctttctgcattccgctatctaaaatgctcaatgttttattttttaacagGGATCTTATCCTTTCAGTCCTTTTGCTATGCCTTCTCCAAATGGCATTGCTGAGACCTCT
||||||| || |  |  |||||||  ||  |||||| ||  ||  ||  |   ||      || |  |    |  || ||||          ||||      |||||||||||||||||| | ||||||||| ||||||||||| ||||||||||||||| | || 
gtatttt-ttataaactatgctttc-ttgaagttatcatgctga-atgattagctcatcaactactct----tgcctcaaat----------ttat------acagGGATCTTATCCTTTTAATCCTTTTGCCATGCCTTCTCCTAATGGCATTGCTGAGGCTTCA

upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G15810.1 (Glycine max), 3'ss of exon 5
gtattttcttttggagcatgctttagtttcagttataatattgtcatcgtgtacttgctttctgcattccgctatctaaaatgctcaatgttttatt--ttttaacagGGATCTTATCCTTTCAGTCCTTTTGCTATGCCTTCTCCAAATGGCATTGCTGAGACCTCT
||||| | || | ||  ||||| |  ||   | ||| ||||||| ||     | |  |  | |  | | |  |  |||| ||   ||   ||||||   |||    |||||||||||||||||||||||||||| ||| ||||||||||||| ||||| ||  | || 
gtattct-ttgtagataatgctctc-ttatggatattatattgttattaatca-tcacaatttagaattcatttactaatatttgcatatttttatgaatttatttagGGATCTTATCCTTTCAGTCCTTTTGCCATGGCTTCTCCAAATGGTATTGCAGATGCTTCA

upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G34280.1 (Glycine max), 3'ss of exon 5
gtattttcttttggagcatgctttagtttcagttataatattgtcatcgtgtacttgctttctgcattccgctatctaaaatgctcaatgttttattttttaa--cagGGATCTTATCCTTTCAGTCCTTTTGCTATGCCTTCTCCAAATGGCATTGCTGAGACCTCT
||||| | || | ||   ||||||  ||   | ||| ||||||| ||     | |     | |  | | |  ||   || ||   ||   || ||    |  |   |||||||||||||||||||||||||||| ||| ||||||||||||| ||||| ||  | || 
gtattct-ttgtagatagtgctttc-ttatggatattatattgtaattaatca-tcataatttagaattcattaatcaatatttccatatttctaccaatacatttagGGATCTTATCCTTTCAGTCCTTTTGCCATGGCTTCTCCAAATGGTATTGCAGATGCTTCG

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|110699224|gb|EE076034.1|EE076034
EST:     TTGCAATGTATCCCCCTGGTGGCTTATATGCTCATCCATCTATTCCTCCG                         GGATCTTATCCTTTCAGTCCTTTTGCTATGCCTTCTCCAAATGGCATTGCT
genomic: TTGCAATGTATCCCCCTGGTGGCTTATATGCTCATCCATCTATTCCTCCGgtattttctt ... tttttaacagGGATCTTATCCTTTCAGTCCTTTTGCTATGCCTTCTCCAAATGGCATTGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttgctttctgcattccgctatctaaaatgctcaatgttttattttttaacagGGATCTTATCCTTTCAGTCCTTTTGCTATGCCTTCTCCAAATGGCATTGCTGAGACCTCT
                      atctaaa  putative branch site (score: 3)
                                       ttttatttttt  putative PPT
                         taaaatgctcaatgtt  TA-rich tract