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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccag

Basic information

species Glycine max
transcript GLYMA17G01820.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G01820.2 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os03g36790.1 (Oryza sativa), 5'ss of exon 2
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccag
          |||||||| | ||||||||  |  |||| ||||| | |||||||||||| |||||| |||| ||||| ||||||||  |||| ||||||||| |  |     | |||  |  | |  | |   ||| |     ||||     | | | | |    | ||               
---------GTTCAATTGATCAGAATTCAGTTGCGAGTGCCTGAATTTGGTTGGACTACCCAGAAGGTTTTCCATCTGATGAACTTTGTTGTAAACGGAGgtaatgttgtgctcctttgttttgtttgatgtcttcagatcaacttttatttactatatgtgccatcttgcag-----------

upper sequence: GLYMA17G01820.2 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os03g36790.3 (Oryza sativa), 5'ss of exon 1
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccag
  | || || |||||||| | ||||||||  |  |||| ||||| | |||||||||||| |||||| |||| ||||| ||||||||  |||| ||||||||| |  |     | |||  |  | |  | |   ||| |     ||||     | | | | |    | ||               
CTTTTGAAGGTTCAATTGATCAGAATTCAGTTGCGAGTGCCTGAATTTGGTTGGACTACCCAGAAGGTTTTCCATCTGATGAACTTTGTTGTAAACGGAGgtaatgttgtgctcctttgttttgtttgatgtcttcagatcaacttttatttactatatgtgccatcttgcag-----------

upper sequence: GLYMA17G01820.2 (Glycine max), 5'ss of exon 1
lower sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcc-----tcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccag-------------
          ||||| || | || || ||| | ||||| ||||||||||||||||||||||||||| | |||||||| ||||||||  | ||||| |||||| |    |   |  |||       || || |     ||| ||||||| |   || | |||    |||| |||| ||    |  ||                
---------GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtca-gcacctttgggattatgttttgttgaatttctctgttgtgtgtgtgcag

upper sequence: GLYMA17G01820.2 (Glycine max), 5'ss of exon 1
lower sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcat-ttcaggttctttctgtgtttctttcgcccatttttttttatttttt-----atttttatattccag
         |||||| || | || ||| || | ||||| || |||||||||||||| || |||||| |||| ||||| ||||||||||| ||||| |||||| |  | | | |  | | | || ||  |||| ||||| | ||   |       | || |||  |||||      |||| | |||| |||
---------ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatat-agtgttgcttgatattttggttatttctttcttgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag

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|14259987|gb|BG882895.1|BG882895
EST:     TTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAG                         TGCGTGCAGTGGTGTTTGGATTGCACAAGCTAGTTTTTCTTTTGCATCCTA
genomic: TTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctc ... tatattccagTGCGTGCAGTGGTGTTTGGATTGCACAAGCTAGTTTTTCTTTTGCATCCTA
EST: gi|7796878|gb|AW782272.1|AW782272
EST:     TTGGACTACTCAGAAGATTATTCATCTCATGAACTTCATTGTCAACGGAG                         TGCGTGCAGTGGTGTCTGGATTGCACAAGCTAG
genomic: TTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctc ... tatattccagTGCGTGCAGTGGTGTTTGGATTGCACAAGCTAG
EST: gi|193511587|gb|FK470872.1|FK470872
EST:     TTGGACTACTCAGAAGATTTTTTATCTCATGAACTTCATTGTCAACGGAG                         TGCGTGCAGTGGTGTTTGGATTGCACAAGCTAGTTTTTCTTTTGCATCCTA
genomic: TTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctc ... tatattccagTGCGTGCAGTGGTGTTTGGATTGCACAAGCTAGTTTTTCTTTTGCATCCTA