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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTAGAGGTTTTGTTCAATGGTAATTCACCTCATGAAGTTGCTCATATCGCAAATGGTTCACATCCTGGAAATTGCATCTCTCTTCTTCGAATCAATgtaagtttcaaaccttcattaaaaccctaattcaaagatttcaattttttccgaataaattagggtttttgcag

Basic information

species Arabidopsis thaliana
transcript AT5G46880.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G46880.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os10g42490.1 (Oryza sativa), 5'ss of exon 11
CTAGAGGTTTTGTTCAATGGTAATTCACCTCATGAAGTTGCTCATATCGCAAATGGTTCACATCCTGGAAATTGCATCTCTCTTCTTCGAATCAATgtaagtttcaaaccttcattaaaaccctaattcaaagatttcaattttttccgaataaattagggtt--tttgcag-------------------------------
|| ||| ||||||  || ||    || | |||||| || || ||||| |||||||| ||||||||  | |||||||||||||||||||| || || || |||  | ||    ||       |||   | || |||  ||  ||||| ||      |    |||  ||| | |                               
CTTGAGATTTTGTCAAACGGCGGCTCCCTTCATGAGGTGGCACATATTGCAAATGGATCACATCCAAGGAATTGCATCTCTCTTCTTCGCATTAACgtgagtacccaattacca-------cctctctgaatgatgccatgttttttcgtccttgtagtagttaatttcctgattcaagagcatgatcataataattgaagtg

upper sequence: AT5G46880.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA01G01850.1 (Glycine max), 5'ss of exon 10
CTAGAGGTTTTGTTCAATGGTAATTCACCTCATGAAGTTGCTCATATCGCAAATGGTTCACATCCTGGAAATTGCATCTCTCTTCTTCGAATCAATgtaag------tttcaaaccttcattaaaaccctaattcaaagatttcaattttttccgaataaattagggtttttgcag--------------------
 | ||   | | |  || || || |||    ||||||| |||||||| |||||||| |||||||| ||||| ||||| ||||||||||| || ||||||||      || ||||          |    |   |   |||  |||  |||||||       ||   || | | ||                     
ATGGATACTCTTTCAAACGGGAACTCATTGAATGAAGTGGCTCATATTGCAAATGGCTCACATCCAGGAAACTGCATTTCTCTTCTTCGCATAAATgtaagatcattttccaaattaatggagtattgttctctggtagaaatcacctttttcctgtccccttcttgtctctccaatagaagaaaaaaaacatatg

upper sequence: AT5G46880.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA09G34070.1 (Glycine max), 5'ss of exon 10
CTAGAGGTTTTGTTCAATGGTAATTCACCTCATGAAGTTGCTCATATCGCAAATGGTTCACATCCTGGAAATTGCATCTCTCTTCTTCGAATCAATgtaagtttcaaaccttcattaa--aaccctaattc----aaagatttcaattttttccgaataaa-ttagggtttttgcag-------------------
 | || | | | | |||||| || |||    ||||||| |||||||| |||||||| |||||||| ||||| ||||| ||||||||||| || |||||||| |      |   |||||   |   |  |||    | |||  |||  |||||||   |    ||   || | | |                     
ATGGATGCTCTTTCCAATGGGAACTCATTGAATGAAGTGGCTCATATTGCAAATGGCTCACATCCAGGAAACTGCATTTCTCTTCTTCGCATAAATgtaagatcattgtccgaattaatggagtattgttctctgatagaaatcacctttttccctgtccccttcttgtctctcctatagaagaaaaaaatatgtg

upper sequence: AT5G46880.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv02s0012g02030.t01 (Vitis vinifera), 5'ss of exon 10
CTAGAGGTTTTGTTCAATGGTAATTCACCTCATGAAGTTGCTCATATCGCAAATGGTTCACATCCTGGAAATTGCATCTCTCTTCTTCGAATCAATgtaagtttcaaaccttcattaaaaccctaattcaaagatttcaattttttccgaataaattagggtttttgcag--------------------------------
|| || ||| | | |||||| |||||    |||||||| || || || || ||||| || ||||| ||||| ||||| ||||||||||| |||||||||||| |      |  | || |    || ||| |  || |      ||  |  |||| | ||   |  ||                                   
CTTGATGTTCTTTCCAATGGGAATTCCTTACATGAAGTGGCACACATTGCCAATGGCTCTCATCCAGGAAACTGCATTTCTCTTCTTCGCATCAATgtaagtctt----ttctactatacagatagttctataatattttcccttatc--ataattcagatctactgatcattaacataggaaaccaacataatcagtgtat

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|164226225|gb|ES006495.1|ES006495
EST:     TCGCAAATGGTTCACATCCTGGAAATTGCATCTCTCTTCTTCGAATCAAT                         GTCGCAAGCAACTCATGGCATAA
genomic: TCGCAAATGGTTCACATCCTGGAAATTGCATCTCTCTTCTTCGAATCAATgtaagtttca ... gtttttgcagGTCGCAAGCAACTCATGGCATAA