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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttcaactttcttcgacaccgatttaagaaacttctgttttcatttagaccattgattagtctaaagaaaattgtgcaacttgtttctttaagGTTACTTCTGGAATGAGCCCTGCATATAATCGATATGGGTGCACTCTTATTG

Basic information

species Arabidopsis thaliana
transcript AT3G05190.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G05190.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA10G29770.1 (Glycine max), 3'ss of exon 12
gtatttcaactttcttcgacaccgatttaagaaacttctgttttcatttagaccattgatta----gtctaaagaaaattgtgcaacttgtttcttta---agGTTACTTCTGGAATGAGCCCTGCATATAATCGATATGGGTGCACTCTTATTG
   |||  ||  ||  |  |    |||    || | ||  |  |   | |  |  | ||  |    ||||    |    |||  || || |||  ||    ||||||||||||| |||||||||||||  |||| |||||| |||||  | ||||
---tttataccatccacagccataattatgaaaccatcaatcatttgtaattctttggagcaaactgtcttttcactgatgtaaaagttattttcttctctagGTTACTTCTGGGATGAGCCCTGCATTAAATCTATATGGATGCACATTAATTG

upper sequence: AT3G05190.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 21
-----gtatttcaacttt-cttcgacaccgatttaagaaacttctgttttcatttagaccattgattagtctaaagaaa-attgtgcaacttgtttctttaagGTTACTTCTGGAATGAGCCCTGCATATAATCGATATGGGTGCACTCTTATTG
      ||    ||||    ||  | |  ||  ||| | | || ||       || |       | |  | ||  ||     | |    || || |  || |||||||||||||||||||||| ||||  ||||  ||||| |||||||| ||||
ttctattaaactaactcaattttaaaaatga--taaaatatttgtgcaacttcttcgcatgcctactgttttattgatttgctatatt-ctggtgtaattcagGTTACTTCTGGAATGAGCCCGGCATTCAATCTCTATGGATGCACTCTAATTG
















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|164029915|gb|ES201645.1|ES201645
EST:     TCTAACTCGAGGCAAAAAG                         GTTACTTCTGGAATGAGCCCTGCATATAATCGATATGGGTGCACTCTTATT
genomic: TCTAACTCGAGGCAAAAAGgtatttcaac ... tttctttaagGTTACTTCTGGAATGAGCCCTGCATATAATCGATATGGGTGCACTCTTATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcatttagaccattgattagtctaaagaaaattgtgcaacttgtttctttaagGTTACTTCTGGAATGAGCCCTGCATATAATCGATATGGGTGCACTCTTATTG
                     gtctaaa  putative branch site (score: 3)
                                         cttgtttcttt  putative PPT
                        taaagaaaatt  TA-rich tract