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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtattttgatcttctttaaaaaaaaatcttctgacgcttgtaaagctggctgcaacttattttgtttaaaatatgtgaaactgactgctactttcttttttgaagTGCTGTACAGAGACTTGATCTTTCCAAATCAAAAGCCTCTGTGCTTGCTTCG

Basic information

species Arabidopsis thaliana
transcript AT5G51660.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G51660.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA09G28030.1 (Glycine max), 3'ss of exon 8
gtagtattttgatcttctttaaaaaaaaatcttct---gacgcttgtaaagctggctgcaacttattttgtttaaaatatgtgaaactgactgctactttcttttttgaagTGCTGTACAGAGACTTGATCTTTCCAAATCAAAAGCCTCTGTGCTTGCTTCG
           | | |  ||  |     || | ||    ||  |  ||||      |   |   |   |  |  | | ||   ||||  ||   || |||   |||| | | | |||||||||||||||||||||||| |||||||| || || ||  | || 
-------ggcaaccattgttgcagtgccatgtgctcaaaacattactaaacgcaattatgatagaacctcctatatacat---aaaccaacaaatatttttcattttcagG-GTTGTACAGAGACTTGATCTTTCCAAGTCAAAAGCTTCAGTTCTGTCATCT

upper sequence: AT5G51660.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA16G32890.1 (Glycine max), 3'ss of exon 8
----gtagtattttgatcttctttaaaaaaaaatcttctgacgcttgtaaagctggctgcaacttattttgtttaaaatatgtgaaactgactgctactttcttttttgaagTGCTGTACAGAGACTTGATCTTTCCAAATCAAAAGCCTCTGTGCTTGCTTCG
    || | | |   || | ||  ||| | |||   |   ||  || || | |   ||  |   ||  |     || |  | |     | | |  |  |||   |||| | | | |||||||||||||||||||||||| |||||||| || || ||  | || 
cattgttgcagtgccatgtgctcaaaacataaacact---actattatagaacctcctata---tacatgaaccaacaatttt-----ttattattttttttcattttcagG-GTTGTACAGAGACTTGATCTTTCCAAGTCAAAAGCTTCAGTTCTGTCATCT
















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|116380073|gb|EG422665.1|EG422665
EST:     CGACAAAATCTGGGGAATTTGTTGCTGCTGACTCTTATATATGATGGGCG                         TGCTGTACAGAGACTTGATC
genomic: CGACAAAATCTGGGGAATT-GTTGCTGCTGACTCTTATATATGATGGGCGgtagtatttt ... ttttttgaagTGCTGTACAGAGACTTGATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcaacttattttgtttaaaatatgtgaaactgactgctactttcttttttgaagTGCTGTACAGAGACTTGATCTTTCCAAATCAAAAGCCTCTGTGCTTGCTTCG
                            aactgac  putative branch site (score: 2)
                                  ctgctactttcttttt  CT-rich tract
      ttattttgtttaaaat  TA-rich tract