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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcctccacacctttgttcatatagttaaacatttctagttaagatttaagaatcccaaagtgtttaactatgaacatttctgattatattagGTACTTGCTAGAATTTGATGATGATGAAGAAGACGGAGCATTACCTCAAAGAACAGTGCCATTCCACAAAGTGGTAGCTTTACCAGAAGGCCATCGCCAG

Basic information

species Arabidopsis thaliana
transcript AT3G27460.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G27460.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA16G07460.1 (Glycine max), 3'ss of exon 8
gtaa--gttcctccacacctttgttcatatagttaaacatttctagttaagatttaagaatccc-----aaagtgtttaactatgaacatttctgattatattagGTACTTGCTAGAATTTGATGATGATGAAGAAGACGGAGCATTACCTCAAAGAACAGTGCCATTCCACAAAGTGGTAGCTTTACCAGAAGGCCATCGCCAG
 |||  || | |    | ||     | |   |||      ||||  ||    || ||   | |      |  ||  |||||| ||||  |    ||||  |  || ||  || | ||||||||||||||||| ||||| ||| | ||||||||||| ||||||||||||| |||||||||  || | |||||||| |||||||| 
-taactgtgcttttggaactggaccctttgtgtttttttcttcttctttttcttcaactgttctgttctatggttgttaactctgaaagt----gattggaacagTTATGTGTTGGAATTTGATGATGATGAGGAAGATGGATCTTTACCTCAAAGGACAGTGCCATTCCGCAAAGTGGTTCCTCTTCCAGAAGGACATCGCCAA

upper sequence: AT3G27460.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA19G08050.1 (Glycine max), 3'ss of exon 9
----------gtaagttcctccacacctttgttcatatagttaaacatttctagttaagatttaagaatcccaaagtgtttaactatgaacatttctgattatattagGTACTTGCTAGAATTTGATGATGATGAAGAAGACGGAGCATTACCTCAAAGAACAGTGCCATTCCACAAAGTGGTAGCTTTACCAGAAGGCCATCGCCAG
             |  |   ||     | | ||| | |  || |||  ||||  ||   | |     || | |  ||  |||||| |  | | |   | ||  |  || ||| || | ||||||||||||||||| ||||| ||| | ||||| ||||| |||||||| ||||||||||||||  || | |||||||| |||||||| 
actgtgcttttggaactggaccctttgtgttttcttcttcttcaactgttctgtttgccact-----atgctatggttgttaactctcgaaagt---gtttggaacagTTACGTGTTGGAATTTGATGATGATGAGGAAGATGGATCTTTACCACAAAGGACAGTGCCCTTCCACAAAGTGGTTCCTCTTCCAGAAGGACATCGCCAA
















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|124903906|gb|EH977986.1|EH977986
EST:     CCCCACGAAAGAGGAAATCTGACGA                         GTACTTGCTAGAATTTGATGATGATGAAGAAGACGGAGCATTACCTCAAAG
genomic: CCCCACGAAAGAGGAAATCTGACGAgtaagttcct ... attatattagGTACTTGCTAGAATTTGATGATGATGAAGAAGACGGAGCATTACCTCAAAG
EST: gi|86086111|gb|DR381870.1|DR381870
EST:     CCCCACGAAAGAGGAAATCTGACGA                         GTACTTGCTAGAATTTGATGATGATGAAGAAGACGGAGCATTACCTCAAAG
genomic: CCCCACGAAAGAGGAAATCTGACGAgtaagttcct ... attatattagGTACTTGCTAGAATTTGATGATGATGAAGAAGACGGAGCATTACCTCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaagatttaagaatcccaaagtgtttaactatgaacatttctgattatattagGTACTTGCTAGAATTTGATGATGATGAAGAAGACGGAGCATTACCTCAAAGAACAGTGCCATTCCACAAAGTGGTAGCTTTACCAGAAGGCCATCGCCAG
                                        ttctgat  putative branch site (score: 3)
                                      atttctgattatatta  TA-rich tract