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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgggcatatatttgagtgctttgtattcctgtatgccctgttatggtttggtttgtagataattcaatcgaattagttcttaagtttagttggatgagatagtagatattgttgaaagtttgcaatgtttacttttcgtttttgctataggaattgatctattggtttgtatttgttctttgttacagTCAAAGCTAAAGGAGTCACAATATCAATTGACACCTTGGCGTTCAGATATGAACCATGCTAATGTTGCCACACAATCACAACCTCACTCGATTGGTGCAC

Basic information

species Glycine max
transcript GLYMA20G35770.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35770.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv07s0130g00420.t01 (Vitis vinifera), 3'ss of exon 9
gtatgttgggcatatatttgagtgctttgtattcctgtatgccctgttatggtttggtttgtagataattcaatcgaattagttcttaagtttagttggatgagatagtagatattgttgaaagtttgcaatgtttacttttcgtttttgctataggaattgatctattggtttgtatttgttcttt-----gttacagTCAAAGCTAAAGGAGTCACAATATCAATTGACACCTTGGCGTTCAGATATGAACCATGCTAATGTTGCCACACAATCACAACCTCACTCGATTGGTGCAC
                     ||   || | |   || |   |    | || |   ||||   |||  |    |  |||||  |   ||  | |  |||  ||  |  ||| |   | ||       |||| | ||  ||  ||  ||   ||| || ||||  ||| |  | ||| ||| | ||||     || | || |||||||||||||||| |||| ||||||| |||| |||||||| ||| |||||||  | ||  || |  |||| |||| |||||| || ||||||||| 
---------------------gtatgttatgtaaatggacttcacaatttgttgcagttttctgattttgatctgtaattaagtaacaaagtcaactggg-gatttgatagtttgagatgccttggagcaaagcttttttcccgaattg--tattgggattgtcctaattttctgtttttttcctttctctggtcatagACAAAGCTAAAGGAGTCTCAATTTCAATTGGCACCATGGCGTTCTGATGTGAACCACTCAAACTTTTCTCCACAGTCACCACCTCATTCTATTGGTGCAG
















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|8670390|gb|BE191497.1|BE191497
EST:     GTTTTGTTTAAACATTTACAGGAAAAACTTCTTCTCACTGAG                         TCAAAGCTAAAGGAGTCACAATATCAATTGACACCTTGGCGTTCAGATATG
genomic: GTTTTGTTTAAACATTTACAGGAAAAACTTCTTCTCACTGAGgtatgttggg ... tttgttacagTCAAAGCTAAAGGAGTCACAATATCAATTGACACCTTGGCGTTCAGATATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcgtttttgctataggaattgatctattggtttgtatttgttctttgttacagTCAAAGCTAAAGGAGTCACAATATCAATTGACACCTTGGCGTTCAGATATGAACCATGCTAATGTTGCCACACAATCACAACCTCACTCGATTGGTGCAC
                  aattgat  putative branch site (score: 4)
                                      tttgttcttt  putative PPT
                                tttgtattt  TA-rich tract