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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTATCAACATTGCACTCTACTTCAAAGTACATAACTGGGGCATTGAGTTTGCGATTCAGAAAGATATTGACCAAGATTATCCATTCACACTATTTTGAGgtagcaactgccatctcttctgccattcaattgtttactatttctttagatacgagtgtttttgactagtgagagtatcgagtatacttcagactgctggatatctcttcactcagttttaattgttgttttcag

Basic information

species Arabidopsis thaliana
transcript AT4G39850.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G39850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G02110.1 (Glycine max), 5'ss of exon 5
GCTATCAACATTGCACTCTACTTCAAAGTACATAACTGGGGCATTGAGTTTGCGATTCAGAAAGATATTGACCAAGATTATCCATTCACACTATTTTGAGgtagcaactgc-catctcttctgccattcaattgtttactatttctttagatacgagtgtttttgactagtgagagtatcgagtatacttcagactgctggatatctcttcactcagttttaattgttgttttcag
  | |||||  | || ||||| |||||||| ||||| ||| | |||||||| |  |||||||| |||||||| ||| |||||||||| |||||||||||||||  || |||    |  || |    ||  ||||| | |      || |  ||    |  ||||   || |    ||  | |   | ||| |      | | | ||                              
TTTGTCAACCATTCATTCTACGTCAAAGTATATAACAGGGACTTTGAGTTTACATTTCAGAAAAATATTGACAAAGCTTATCCATTCCCACTATTTTGAGgtataaattgcatgccatttgtctttttagattgtctgcg-----ttgaactattgatcattttatatattccttgttcctaccgt-ctttaagtatttagttgtc------------------------------

upper sequence: AT4G39850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA11G38160.1 (Glycine max), 5'ss of exon 4
GCTATCAACATTGCACTCTACTTCAAAGTACATAACTGGGGCATTGAGTTTGCGATTCAGAAAGATATTGACCAAGATTATCCATTCACACTATTTTGAGgtagcaactgccatctcttctgccattcaattgtttactatttctttagatacgagtgtttttgactagtgagagtatcgagtatacttcagactgctggatatctcttcactcagttttaattgttgttttcag
  | |||||  | || ||||| |||||||| ||||| ||| | |||||||| |  |||||||| |||||||| ||| |||||||||| |||||||||||||||  |  ||  |  |    || ||||    | ||||    || | |   |   | ||||   ||  | |     | |    | | | |        |   |||                               
TTTGTCAACCATTCATTCTACGTCAAAGTATATAACAGGGACTTTGAGTTTACACTTCAGAAAAATATTGACAAAGCTTATCCATTCCCACTATTTTGAGgtataacttgttaaattgcatgtcatttgtctattta--gattgtctgcgttgaactgtt---gatcattttatatgttccttgttcctactgtctttaagtatt------------------------------

upper sequence: AT4G39850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G31270.1 (Glycine max), 5'ss of exon 2
GCTATCAACATTGCACTCTACTTCAAAGTACATAACTGGGGCATTGAGTTTGCGATTCAGAAAGATATTGACCAAGATTATCCATTCACACTATTTTGAGgtagcaactgccatctcttctgccattcaattgtttactatttctttagatacgagtgtttttgactagtgagagtatcgagtatacttcagactgctggatatctcttcactcagttttaattgttgttttcag
  |||||||  |||| ||||| || |||||||| |||||| | |||||| |||  ||| | || |||||||| ||  |||||||||| | ||||||||||||||  | |||    |  | ||      ||  | ||||||| | |   |||  |  ||| ||   || || |     |   | || | |          ||  | |||                           
CTTATCAACCATGCAGTCTACATCTAAGTACATTACTGGGACTTTGAGTCTGCACTTCCGTAAAATATTGACTAAACTTATCCATTCTCGCTATTTTGAGgtagatattgctgatttgtatgt-----aaaagcttactatattt---gat-tgtctgtattgagcttgttatccatttatgcattcctactgtcatatgaagtgtctg--------------------------

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|116455491|gb|EG498083.1|EG498083
EST:     TGCGATTCAGAAAGATATTGACCAAGATTATCCATTCACACTATTTTGAG                         AATATGGTATATTACAAAATATCACACGTGGATGGTCGGATTACGCACCC
genomic: TGCGATTCAGAAAGATATTGACCAAGATTATCCATTCACACTATTTTGAGgtagcaactg ... ttgttttcagAATATGGTATATTACAAAATATCACACGTGGATGGTCGGATTACGCACCC