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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattcagagttttctttgtatccctattggagttctccacgtgcacttttcctgatcttttaattttgcctgcagGGGAAACTTCTGGAACAACAGCTACATTTGTTCTGATTGATAGATGGACTGTTACTGTTGCATCTGTTGGGGATTCCCGTTGCATATTAGATACTCAAGG

Basic information

species Glycine max
transcript GLYMA20G38270.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38270.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 3
--------------gtacattcagagttttctttgtatccctattggagttctccacgtgcacttttcctgatctt-ttaattttgcctgcagGGGAAACTTCTGGAACAACAGCTACATTTGTTCTGATTGATAGATGGACTGTTACTGTTGCATCTGTTGGGGATTCCCGTTGCATATTAGATACTCAAGG
               ||  ||   |    | ||||  |  |||||   ||| | || |    || |  | |||    |   || ||| | ||||||||||||| |||||||| |  || |||||| | |||||| | |||||| |||||||||| |||||||| || || || |||||||| || || |||||
gtcttagcttatgcttattttttaaaggctttttgc-tttctattcttgtttttcaagcatgctctaaccgataagatctgttgtgcttacagGGGAAACTTCAGGAACAACCGTGACTTTTGTTATAATTGATGGTTGGACTATTACTGTTGCTTCTGTTGGTGACTCGCGCTGCATATTGGACACCCAAGG

upper sequence: GLYMA20G38270.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0060g01580.t01 (Vitis vinifera), 3'ss of exon 3
--------gtacattcagagtttt----ctttgtatccctattggagttctccacgtgcacttttcctgatcttttaattttgcctgcagGGGAAACTTCTGGAACAACAGCTACATTTGTTCTGATTGATAGATGGACTGTTACTGTTGCATCTGTTGGGGATTCCCGTTGCATATTAGATACTCAAGG
         ||  | |  | |||       |   | || | ||| |  | |    |||  ||| || | |   ||| || |      |||| ||||||||||| || ||||  ||||||||| |||||||  | ||||| || |||||||||||||| |||||||| || |||||||| || || || ||
gcaagaacctatttccctaatttcagcatctctaagccttgttgcatatatttttgtgttcttatctttaatatttgatataaatgacagGTGAAACTTCTGGCACGACAGTGACATTTGTTGTGATTGACGGGTGGACGGTGACTGTTGCATCTGTAGGGGATTCTCGATGCATATTGGACACACAGGG
















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|209702216|gb|BW677965.1|BW677965
EST:     TGCTCTAGTTGTTGGTTTTGTAAAAACTGACATAGAGTTTCAGAAAAAAG                         GGGAAACTTCTGGAACAACAGCTACATTTGTTCTGATTGATAGATGGACTG
genomic: TGCTCTAGTTGTTGGTTTTGTAAAAACTGACATAGAGTTTCAGAAAAAAGgtacattcag ... ttgcctgcagGGGAAACTTCTGGAACAACAGCTACATTTGTTCTGATTGATAGATGGACTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccctattggagttctccacgtgcacttttcctgatcttttaattttgcctgcagGGGAAACTTCTGGAACAACAGCTACATTTGTTCTGATTGATAGATGGACTGTTACTGTTGCATCTGTTGGGGATTCCCGTTGCATATTAGATACTCAAGG
                                     ttttaat  putative branch site (score: 3)
                                           ttttgcct  CT-rich tract
                                tgatcttttaatttt  TA-rich tract