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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaaaacgctaatctattaacagtgtttctcttgttatggttttggatccattttcttaactaatgttgtggttttggtggcagGTGATCTTCATTGGAAAATAGTTTCAGTTTACATAAACAGGCTAAATCAA

Basic information

species Arabidopsis thaliana
transcript AT3G22810.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G22810.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA02G00760.1 (Glycine max), 3'ss of exon 4
------gttaaaacgctaatctattaacagtgtttctc----ttgttatggttttg--gatc---cattttcttaactaatgttgtggttttggtggcagGTGATCTTCATTGGAAAATAGTTTCAGTTTACATAAACAGGCTAAATCAA
      |||        | | | ||    ||||||||     ||||| ||  | ||  |||     | |   || | |   |   |  ||    | |||||||| || ||||||||||| || || ||||||||||||||| | ||||| 
ttgtttgttttgttttgatttttttttgtgtgtttcttccaattgttgtgtatatgatgattaggaaatgatttgatttgagaattatttgcacttgcagGTGAACTGCATTGGAAAATTGTATCTGTTTACATAAACAGGATGAATCAG

upper sequence: AT3G22810.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G00600.1 (Glycine max), 3'ss of exon 4
--gttaaaacgctaatctattaacagtgtttctct----tgttatggttttggatccattttcttaactaatgttgtggttttgg------------tggcagGTGATCTTCATTGGAAAATAGTTTCAGTTTACATAAACAGGCTAAATCAA
  |||   |   |  ||| ||    ||||||||      |||| ||  | || ||     |  |||   |||| | || |||  |            | |||||||| || ||||||||||| || || ||||||||||||||| | ||||| 
tggttttgatttt--tcttttttttgtgtttcttccaaatgttgtgtatatg-atgatgatgattaggaaatgatttgatttgagaattgcctgcacttgcagGTGAACTGCATTGGAAAATTGTATCCGTTTACATAAACAGGATGAATCAG
















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|116383340|gb|EG425932.1|EG425932
EST:     TAGAGAATGGCTTGCTCGAGGTGGCCAACTTCTTAAACGCACCCGCAAAG                         GTGATCTTCATTGGAAAATAGTTTCAGTTTACATAAACAGGCTAAATCAA
genomic: TAGAGAATGGCTTGCTCGAGGTGGCCAACTTCTTAAACGCACCCGCAAAGgttaaaacgc ... ttggtggcagGTGATCTTCATTGGAAAATAGTTTCAGTTTACATAAACAGGCTAAATCAA
EST: gi|164176029|gb|EL997614.1|EL997614
EST:     CACCCGCAAAG                         GTGATCTTCATTGGAAAATAGTTTCAGTTTACATAAACAGGCTAAATCAA
genomic: CACCCGCAAAGgttaaaacgc ... ttggtggcagGTGATCTTCATTGGAAAATAGTTTCAGTTTACATAAACAGGCTAAATCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgttatggttttggatccattttcttaactaatgttgtggttttggtggcagGTGATCTTCATTGGAAAATAGTTTCAGTTTACATAAACAGGCTAAATCAA
                             aactaat  putative branch site (score: 2)
                     attttcttaactaat  TA-rich tract