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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttgtctgtgctgtgcattaattgtcttcctaattgactaaaaattggaagacaagattttactataattatactgacttgtgaattgttaaatgcagACTGATGTCTTTTTAATTTGCTCAAATGCAATGCAATACAATGCACCAGAGACTATATACCACAAACAG

Basic information

species Glycine max
transcript GLYMA08G43050.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G43050.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G55040.2 (Arabidopsis thaliana), 3'ss of exon 5
attttgtctgtgct-gtgcattaattgtcttcctaattgactaaaa--attggaagacaagattttactataattatactgacttgtgaattgttaaatgcagACTGATGTCTTTTTAATTTGCTCAAATGCAATGCAATACAATGCACCAGAGACTATATACCACAAACAG
  |    |||  || ||| |||   |    || |   | |   | |   |||   |||     |||||||   |  |  ||       | || || ||||||||  |||||||| || ||||||||||||||||||||||||||| |  |||| ||| | ||| | ||||||
--tagaactgctctagtgtatttgctaggatcatgtataatctataccgttgcttgacttc-ctttactaacctggttttggaactgtatttcttgaatgcagAGCGATGTCTTATTGATTTGCTCAAATGCAATGCAATACAATTCCTCAGACACTGTCTACTATAAACAG

upper sequence: GLYMA08G43050.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0090g00610.t01 (Vitis vinifera), 3'ss of exon 5
attttgtctgtgctgtgcattaattgtct-tcctaattgactaaaaattggaagacaag-attttactataattatactgacttgtgaa-------ttgttaaatgcagACTGATGTCTTTTTAATTTGCTCAAATGCAATGCAATACAATGCACCAGAGACTATATACCACAAACAG
         |   ||    | ||||   | ||| ||   || |     ||  ||| |||  |    || ||  | || || ||||| ||       || || |||| ||| ||| || ||| | |||||| | |||||||||||||||||||| ||||| || |||||||| ||||||
---------gatttgaatttgaattccttctcccaagaaaccatgttctgatagaaaagtgtgactctttatatgtattggcttgtaaaattggttttcttgaatgtagAGTGACGTTTTTCTGATTTGCACCAATGCAATGCAATACAATGCCCCAGATACCATATACCATAAACAG
















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|193339504|gb|FK304823.1|FK304823
EST:     TATACTACCTTAGAACAATTTGAG                         ACTGATGTCTTTTTAATTTTGCTCAAATGCAATGCAATACAATGCACCAGA
genomic: TATACTACCTTAGAACAATTTGAGgtatgcaaac ... ttaaatgcagACTGATGTCTTTTTAA-TTTGCTCAAATGCAATGCAATACAATGCACCAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attggaagacaagattttactataattatactgacttgtgaattgttaaatgcagACTGATGTCTTTTTAATTTGCTCAAATGCAATGCAATACAATGCACCAGAGACTATATACCACAAACAG
                            tactgac  putative branch site (score: 1)
        acaagattttactata  TA-rich tract