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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgttttatattgttggatttataagtttgtgatatttgtcacagtaatattttgtactttaatgtttacttattttccttaattatatttatcacagGTCTTTAACAACAGCCCAGATGAGACTGCTTACTTTAGAATGATACTAAACCGTGAAAATGTTGCGAATTCTGTTGTCATGGTTCAGCCTTCGTTGATTT

Basic information

species Glycine max
transcript GLYMA03G22740.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G22740.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G21630.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgtgttttatattgt---tggatttataagtttgtgatat-ttgtcacagtaatattttgtactttaatgtttacttattttccttaattatatttatcacagGTCTTTAACAACAGCCCAGATGAGACTGCTTACTTTAGAATGATACTAAACCGTGAAAATGTTGCGAATTCTGTTGTCATGGTTCAGCCTTCGTTGATTT
|||  | |   | | |||   |  ||  |  |     ||| || || | |  | |  ||||| | ||||   | | | ||   ||         |   | |   |||||||||||||||||||||| ||||| || || ||| |||||||| |  || | || || ||| | ||||| || || ||| |||| |||||  ||||||
gtacttatcc-acactgtccctatatgcacgatcgactgaaatctttttaacgcacaattttatccttttgggctcatttggctt---------tgccttttgtagGTCTTTAACAACAGCCCAGACGAGACAGCATATTTTCGAATGATATTGTACAGAGAGAACGTTTCTAATTCAGTCGTGATGATTCAACCTTCACTGATTT

upper sequence: GLYMA03G22740.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 11
----------------------gtatgtgttttatattgttggatttataagtttgtgat-atttgtcacagtaatattttgtactttaatgtttacttattttccttaattatatttatcacagGTCTTTAACAACAGCCCAGATGAGACTGCTTACTTTAGAATGATACTAAACCGTGAAAATGTTGCGAATTCTGTTGTCATGGTTCAGCCTTCGTTGATTT
                         | | | ||    | ||  | |  ||  ||  |||| |||  | ||  |       | |  | |  | |  | |||| |     |||| | ||| |||||||| ||||| |||||||| ||||||||||| |||||||||||||| || ||||| |||||||| || ||||| ||||| ||| |||||||||| |||||||
gtataactgactattggtttataattctatctttgcatcttataatcgtagtttgatgatgattaattactctcgccccctcttatcttctctagatttatctctggcaattctttttgtcacagGTTTTTAATAACAGCCCTGATGAGACTGCATACTTTAGAATGATCCTGAACCGGGAAAATGTGGCCAATTCAGTTGTGATGATTCAGCCTTCATTGATTT
















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|13789480|gb|BG652071.1|BG652071
EST:     CAATATTCCCTCAATTTATGTTTCATTTACGACGCTCTCAGTTTGTTCAG                         GTCTTTAACAACAGCCCAGATGAGACTGCTTACTTTAGAATGATACTAAAC
genomic: CAATATTCCCTCAATTTATGTTTCATTTACGACGCTCTCAGTTTGTTCAGgtatgtgttt ... tttatcacagGTCTTTAACAACAGCCCAGATGAGACTGCTTACTTTAGAATGATACTAAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtaatattttgtactttaatgtttacttattttccttaattatatttatcacagGTCTTTAACAACAGCCCAGATGAGACTGCTTACTTTAGAATGATACTAAACCGTGAAAATGTTGCGAATTCTGTTGTCATGGTTCAGCCTTCGTTGATTT
                                  ccttaat  putative branch site (score: 4)
            tactttaatgtttact  TA-rich tract