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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaaaaatttgtagtggatttatacttgcatatattttactgtgctttggaggaaaggctaatctgtgtttcattatatttatatagATAAACATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTTAGGCGGCAGGCGCTCTATGGATATGATGCCCCTGCTA

Basic information

species Glycine max
transcript GLYMA10G36790.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G36790.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM5G840940_T01 (Zea mays), 3'ss of exon 1
----gta-agtaaaaatttgtagtggatttatacttgcatatattttactgtgctttggaggaaaggctaatctgtgtttcattatatttatatagATAAACATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTTAGGCGGCAGGCGCTCTATGGATATGATGCCCCTGCTA
    |||  | |  ||||  |  |   ||||| ||   | | |||  |   |  | |   | | | | |  |   |  |  | | | | | |  |||| |||||||||||| | ||||| |||||||||||||||||||| || ||||| ||||| || ||  | || ||  | ||||| |||||||||||  || 
gtatgtatggcatgaattcattctaactttat-ctgaaagacattgaag-atagtattctgaacaagtttctgcattatctact-tctctttgcagATTAACATGAAAGGTCTTGATGGGATCCAAGGACCAATATATGTTGGGACTGGTTGTGTTTTCAGAAGACATGCTTTGTATGGTTATGATGCCCCAACTG

upper sequence: GLYMA10G36790.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 10
gtaagtaaaaatttgtagtg--gattt-atact----tgcatatattttactgtgc----tttgga---ggaaaggctaatctgtgtttcattatatttatatagATAAACATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTTAGGCGGCAGGCGCTCTATGGATATGATGCCCCTGCTA
||| ||||     |  ||||   |||| ||||     |||| | || | | | ||     ||| ||    | || |||||| | | | |  | |  |  | | |||| || ||||||||||| ||||| ||||| |||||||| ||||| |||||||| |||||||| || |||||||| ||||||||||||||||||||||  |
gtacgtaaggcactccagtgtgaatttgatacaatgatgcacagatgtgaatttgtaaaattttgattgaggaaagctaattttt-tgttttcaattaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACTGGCTGTGTCTTCAGACGGCAGGCACTCTATGGATATGATGCCCCTGTCA
















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|192297356|gb|FG990662.1|FG990662
EST:     GGATTGATCGTCATGATAGATACTCAAATAGAAATGTTGTATTCTTTGAT                         ATAAACATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACT
genomic: GGATTGATCGTCATGATAGATACTCAAATAGAAATGTTGTATTCTTTGATgtaagtaaaa ... atttatatagATAAACATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattttactgtgctttggaggaaaggctaatctgtgtttcattatatttatatagATAAACATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTTAGGCGGCAGGCGCTCTATGGATATGATGCCCCTGCTA
                        ggctaat  putative branch site (score: 3)
                           taatctgtgtttcatt  TA-rich tract