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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGATGTTATAGCTAGTGCTGAACTCGCGGATTATGGTCCGGTTCGTGGTACTATGGTCATTCGTCCTTATGGTTACGCGATCTGGGAAGCGATTCAGgtgaaaaaattgtggattcaaattgattttgaatgttgatgtttcttcgtatcgcctcaattttcgttgtgaattgttgatgcag

Basic information

species Arabidopsis thaliana
transcript AT5G52520.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G52520.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA09G24670.1 (Glycine max), 5'ss of exon 1
TCTTGATGTTATAGCTAGTGCTGAACTCGCGGATTATGGTCCGGTTCGTGGTACTATGGTCATTCGTCCTTATGGTTACGCGATCTGGGAAGCGATTCAGgtgaaaaaattgtggattcaaattgattttgaatgttgatgtttcttcgtatcgcctcaattttcgttgtgaattgttgatgcag
 || ||| | ||||| | ||| ||  | || ||||| ||||||||||| || || |||||||||||||| || |||||||| || |||||||| ||||||||       |      |||        | |   | ||  | |   ||  | ||   |  |||||  ||||    |||   |||||
CCTCGATATCATAGCCAATGCCGAGTTGGCCGATTACGGTCCGGTTCGCGGCACCATGGTCATTCGTCCCTACGGTTACGCCATTTGGGAAGCCATTCAGgttcct---tctcaatttctcgccacgtgtcccttttcttttcaatttatgtcatttttattttatttgttt-ctgtgtgtgcag

upper sequence: AT5G52520.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA16G29890.1 (Glycine max), 5'ss of exon 1
TCTTGATGTTATAGCTAGTGCTGAACTCGCGGATTATGGTCCGGTTCGTGGTACTATGGTCATTCGTCCTTATGGTTACGCGATCTGGGAAGCGATTCAGgtgaaaaaattgtggattcaaattgattttgaatgttgatgtttcttcgtatcgcctcaattttcgtt-gtgaattgttg---atgcag
 || ||| | ||||| | ||||||  | || ||||| ||||||||||| ||||| ||||| |||||||| || |||||||| || |||||||| ||||||||       |  |    |||||||         |||   | ||   |   ||      ||||||| ||  |   ||  ||     ||||
CCTCGATATCATAGCCAATGCTGAGTTGGCAGATTACGGTCCGGTTCGCGGTACCATGGTTATTCGTCCCTACGGTTACGCCATTTGGGAAGCCATTCAGgt-------tcctt--ctcaaattctcgccacgtgtcccttttctgttcaatttgtgtaattttcatttatttgtttctgtgtgcgcag

upper sequence: AT5G52520.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv16s0050g00960.t01 (Vitis vinifera), 5'ss of exon 1
TCTTGATGTTATAGCTAGTGCTGAACTCGCGGATTATGGTCCGGTTCGTGGTACTATGGTCATTCGTCCTTATGGTTACGCGATCTGGGAAGCGATTCAGgt--------gaaaaaattgtggattcaaattgatt---ttgaatgttgatgtttcttcgtatcgcctcaattttcgttgtgaattgttgatgcag-----
 ||||| || ||||| |  || || ||||| ||||| ||||||||||| || || ||||| ||||||||||| |||||||| || |||||||| ||||||||        |   |  || |   ||  | |   ||   |||  | |   || || || | |  |  | |  ||| |||  || |  | | || ||     
CCTTGACGTCATAGCCAACGCCGAGCTCGCTGATTACGGTCCGGTTCGCGGCACCATGGTTATTCGTCCTTACGGTTACGCCATTTGGGAAGCAATTCAGgttgttttctgtttattttttattttttactccgttatattgtttttgagtgattttttgaaatgatttaggttt-gtttagagtgttggttgtagttatc

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|116443936|gb|EG486528.1|EG486528
EST:     GTACTATGGTCATTCGTCCTTATGGTTACGCGATCTGGGAAGCGATTCAG                         GATTATTTGAATGTGAAGTTCAAAGAGACTGGTCATAGCAACATGTACTTC
genomic: GTACTATGGTCATTCGTCCTTATGGTTACGCGATCTGGGAAGCGATTCAGgtgaaaaaat ... gttgatgcagGATTATTTGAATGTGAAGTTCAAAGAGACTGGTCATAGCAACATGTACTTC