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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacatagaatcttacagattactactactttacaataggcaccttttaccaaatgtttaatgttatttcttcaattaattttttttttccagGAAATTTCTGTTCTGTCGCAATGTCGATCTCCATACATTACTGAGTATTATGGTTCCTTTCTTAATCAAACTAAACTTTGGATAATAATGGAATACATGG

Basic information

species Glycine max
transcript GLYMA12G27300.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G27300.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv19s0014g02310.t01 (Vitis vinifera), 3'ss of exon 4
gtatacatagaatcttacagattact-actactttacaataggc--accttttac-caaatgtttaatgttatttcttcaattaattttttttttccagGAAATTTCTGTTCTGTCGCAATGTCGATCTCCATACATTACTGAGTATTATGGTTCCTTTCTTAATCAAACTAAACTTTGGATAATAATGGAATACATGG
         | || || |||| |  | |  | ||  || ||     | ||   || |||||| |||  |||  || |  || |  | ||||| ||||||||||| || ||| | || ||||||||||||||||| ||||| ||||| |||||||| | |||  | ||||| ||||| ||||||||||||||||||||||
---------gtattttccagagtcttgatcaattaccagtaaatgaatctaccacacaaatgattag-gttgcttatctaaat--tctttttcttccagGAAATCTCAGTTTTATCACAATGTCGATCTCCATATATTACCGAGTACTATGGTTCTTATCTGCACCAAACCAAACTATGGATAATAATGGAATACATGG

upper sequence: GLYMA12G27300.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ15774 (Selaginella moellendorffii), 3'ss of exon 3
gtatacatagaatcttacagattactactactttacaataggcaccttttaccaaatgtttaatgttatttcttcaattaattttttttttccagGAAATTTCTGTTCTGTCGCAATGTCGATCTCCATACATTACTGAGTATTATGGTTCCTTTCTTAATCAAACTAAACTTTGGATAATAATGGAATACATGG
                           || ||  |   |       |||    ||     |||  | |  | || |      |||    |  ||||||||||| || ||||| ||||| ||||| ||||||||||| ||||||||||| || || ||  ||  ||| ||| | |||||  | ||||| |||||||
-----------------------gtagctgctgcatgttttctttatttcttgaagaacataagctcaagttttga------tttcgcgtcacagGAAATTTCAGTGCTGTCTCAATGCCGATCACCATACATTACGGAGTATTATGGATCTTTCCTGCATGGAACAAAATTATGGATCGTTATGGAGTACATGG

upper sequence: GLYMA12G27300.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ32910 (Selaginella moellendorffii), 3'ss of exon 3
gtatacatagaatcttacagattactactactttacaataggcaccttttaccaaatgtttaatgttatttcttcaattaattttttttttccagGAAATTTCTGTTCTGTCGCAATGTCGATCTCCATACATTACTGAGTATTATGGTTCCTTTCTTAATCAAACTAAACTTTGGATAATAATGGAATACATGG
                     |  || ||  ||| |  ||      ||||   ||     |||  | |  | || |      |||    || ||||||||||| || ||||| ||||| || || ||||||||||| ||||||||||| || || ||  ||  ||| ||| | |||||  | ||||| |||||||
--------------------gtagctgctgtttt-cttta-----tttttttgaagaacataagctcaagttttga------tttcgcgtttcagGAAATTTCAGTGCTGTCTCAATGCCGGTCACCATACATTACGGAGTATTATGGATCTTTCCTGCATGGAACAAAATTATGGATCGTTATGGAGTACATGG

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|19270719|gb|BM886975.1|BM886975
EST:     AGAGGATGAAATTGAGGACATTCAGAAG                         GAAATTTCTGTTCTGTCGCAATGTCGATCTCCATACATTACTGAGTATTAT
genomic: AGAGGATGAAATTGAGGACATTCAGAAGgtatacatag ... ttttttccagGAAATTTCTGTTCTGTCGCAATGTCGATCTCCATACATTACTGAGTATTAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcaccttttaccaaatgtttaatgttatttcttcaattaattttttttttccagGAAATTTCTGTTCTGTCGCAATGTCGATCTCCATACATTACTGAGTATTATGGTTCCTTTCTTAATCAAACTAAACTTTGGATAATAATGGAATACATGG
                                   aattaat  putative branch site (score: 3)
                                     ttaattttttttttcc  CT-rich tract
             aaatgtttaatgttat  TA-rich tract