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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAgtaagtttgtgataaactcatgcaggatctttataaacataacaaatgtcagcttgagatcattgatgttttctttccaatgcgcagag

Basic information

species Arabidopsis thaliana
transcript AT1G48850.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G48850.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os03g14990.1 (Oryza sativa), 5'ss of exon 11
GGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAgtaagtt-------tgtgataaactcatgcagg-atctttataaacataacaaatgtcagcttgagatcattg--atgttttctttccaatgcgcagag-
|||||||| |||||||||||||| ||| || | | |||||| |||||||||||  | || ||||| || || |       |   |  |||||||      |||  ||||   | || |||| |   |||   |  | ||  ||||  | |||   |   |   || 
GGAGGGATATCAAATGGTGAAATTATATACTTCAAAGTAGCTTTCAAGCCAACCGCGACTATTGGGgtgagatattccggttcaagtaactcattttttcatcagtatattaaaaaaaaatctatccttagaaatagtgctatgtcatgttttttaaatggcaagc

upper sequence: AT1G48850.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA20G31980.1 (Glycine max), 5'ss of exon 11
GGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAgtaagtttgtgataaactcatgcaggatctttataaacataacaaatgtcagcttgagatcattgatgttttctttccaatgcgcagag------------
|| || || || ||||| ||||| || || |||||| |||| |||||||||||||||||||||||||||||| | | ||    ||        |||| || |  ||  ||            | |    |  |     ||     |||   ||||            
GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtct-taatctcttctctttctgtcttcatcactatctcattcactcagcacacacagatactagccactcagatatgtcaagaggggtttttgtat

upper sequence: AT1G48850.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA10G35560.2 (Glycine max), 5'ss of exon 11
GGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAgtaagtttgtgataaactcatgcaggatctttataaacataacaaatgtcagcttgagatcattgatgttttctttcca---atgcgcagag---------------
|| || || || ||||| ||||| || || |||||| |||| |||||||||||||||||||||||||||||| |    |   ||| | | |  |||| || |  ||  ||    |   || |  | ||  |||  |  |   |||   |||  ||  |               
GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGAgtaagtctaatctcttctctttctg--tcttcatcactatctca----ttcactcgtca-cacagatactagccacccagatatgttcactgatatctttcactctg

upper sequence: AT1G48850.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv13s0019g04190.t01 (Vitis vinifera), 5'ss of exon 11
GGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAgtaagt---ttgtgataaactcatgcaggatctttataaacataacaaatgtcagcttgaga-tcattgatgttttct--ttccaatgc-gcagag----
|| || || ||||| || ||||| |||||||| ||| |||  |||||||||||||| ||||||||||||||     | |      |||   |     |   | | |   |||| |||    | ||||| | ||     |  | |  ||  ||||  ||  ||    
GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCAACATCTACAATTGGAgtaagcaagctctctctctctctctctcatgcacaagacaacaaacacatgcattcatgagaataatcagcatcctttggttgtaatggagctcagccaa

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|124765541|gb|EH855671.1|EH855671
EST:     GTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGA                         A
genomic: GTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAgtaagtttgt ... atgcgcagag-
EST: gi|124765541|gb|EH855671.1|EH855671
EST:     GTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGA                         A
genomic: GTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAgtaagtttgt ... atgcgcagag-