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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatgatctccaatcttaaatcctgaatctttaaaaaatctcaattcttaaatctagaaaccttgaattatgcagGAGATGACTGTATCTCGATCCAAACGGGTTGCTCGAACGTGTTTGTGCACAATGTGAACTGTGGACCGGGTCACGGGATCAGCATTGGTAGTCTCGGCAA

Basic information

species Arabidopsis thaliana
transcript AT1G10640.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G10640.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os05g50260.1 (Oryza sativa), 3'ss of exon 3
--------------gtaatatgatctccaatcttaaatcctgaatctttaaaaaatctcaattcttaaatctagaa--------accttgaattatgcagGAGATGACTGTATCTCGATCCAAACGGGTTGCTCGAACGTGTTTGTGCACAATGTGAACTGTGGACCGGGTCACGGGATCAGCATTGGTAGTCTCGGCAA
              |||  |         ||     |    |        |||||    | | |    ||||  |          |  |   | ||||||| ||||| ||| | || ||||| || || |||    || |     | || ||||||||||||||||| || || ||||||||||||||| |||| || | 
ttcagtgctcacttgtagaaaccgacaggattcaggactaagggaaagctaaaaacactagtacaagtatctgaagtaatatttgctctctgtgatgcagGCGATGATTGTGTTTCCATCCAGACAGGCTGCAGTGACATAAACATACATAATGTGAACTGTGGACCAGGGCATGGGATCAGCATTGGTGGTCTAGGAAG

upper sequence: AT1G10640.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G19670.1 (Glycine max), 3'ss of exon 5
-----------------gtaatatgatctccaatcttaaatcctgaatctttaaaaaatctcaatt--cttaa-atctagaaaccttga--attatgcagGAGATGACTGTATCTCGATCCAAACGGGTTGCTCGAACGTGTTTGTGCACAATGTGAACTGTGGACCGGGTCACGGGATCAGCATTGGTAGTCTCGGCAA
                  |||  | |    ||   |  |  | |       ||||   ||  | ||  || || || |  |||  |  |  ||| |||||||||||||||||| ||||| ||||| || ||||||||| | | ||| |||||||| ||||||||||| || || || ||||||||||| ||||| || ||
tgcaaatggacaaaaaattaaagtaaaacacatgatgtagacttactgacataaatggtccaagttggctcaatatatttaaatttcaattattttgcagGAGATGACTGTATTTCGATACAAACTGGATGCTCGAACATATATGTACACAATGTCAACTGTGGACCAGGGCATGGAATCAGCATTGGAAGTCTAGGAAA

upper sequence: AT1G10640.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G39340.2 (Glycine max), 3'ss of exon 4
-----------------gtaatatgatctccaatcttaaatcctgaatctttaaaaaatctcaatt--cttaa-atctagaaaccttga--attatgcagGAGATGACTGTATCTCGATCCAAACGGGTTGCTCGAACGTGTTTGTGCACAATGTGAACTGTGGACCGGGTCACGGGATCAGCATTGGTAGTCTCGGCAA
                  |||  | |    ||   |  |  | |       ||||   ||  | ||  || ||  | |   ||  |  |  ||| |||||||||||||||||| ||||| ||||| || ||||||||||| |  || |||||||| ||||||||||| || || || ||||||||||| ||||| || ||
tgcaaatggacaaaaaattaaagtaaaacacatgatgtagacttactgacataaatggtccaagttggctcaatgtatttgaatttcaattattttgcagGAGATGACTGTATTTCGATACAAACTGGATGCTCGAACGTATACGTACACAATGTCAACTGTGGACCAGGGCATGGAATCAGCATTGGAAGTCTAGGAAA

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|86060241|gb|DR355998.1|DR355998
EST:     CCTCCAGAACACCAAAGATGTCCTCATTCACAGCACTACTCTCGCTTGCG                         GAGATGACTGTATCTCGATCCAAACGGGTTGCTCGAACGTGTTTGTGCACA
genomic: CCTCCAGAACACCAAAGATGTCCTCATTCACAGCACTACTCTCGCTTGCGgtaatatgat ... aattatgcagGAGATGACTGTATCTCGATCCAAACGGGTTGCTCGAACGTGTTTGTGCACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctgaatctttaaaaaatctcaattcttaaatctagaaaccttgaattatgcagGAGATGACTGTATCTCGATCCAAACGGGTTGCTCGAACGTGTTTGTGCACAATGTGAACTGTGGACCGGGTCACGGGATCAGCATTGGTAGTCTCGGCAA
     aatctttaaaaaatct  TA-rich tract