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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcataataatttagcaaatataagtagcgtatcttcaggttcgccataatctaagtccctagctgcttgttctgattttctttacccataaattccgttttattttctctttgcagGATCCACCAGAAGACCCTGTTGTTACTTTGTGTGGCCATATATTCTGCTATCAGTGTGTATCAGATTATATCACAGGGGATGAGGACACGTGCCCTGCGC

Basic information

species Arabidopsis thaliana
transcript AT1G50410.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G50410.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G43430.1 (Glycine max), 3'ss of exon 9
gtaagtgcataataatttagcaaatataagtagcgtatcttcaggttcgccataatctaagtccctagctgcttgttctgattttctttacccataaattccgttttattttctctttgcagGATCCACCAGAAGACCCTGTTGTTACTTTGTGTGGCCATATATTCTGCTATCAGTGTGTATCAGATTATATCACAGGGGATGAGGACACGTGCCCTGCGC
              |||| |       |  || |   |  | || |  |   ||| |  ||| || |   | |  |  | |||    |  |  |||      ||||| |  | ||    |||||||| || ||||| |||||| ||||  ||||||||||| | ||||| ||||| ||||||||||| ||| | || || |||||  ||| ||||||| |  
------------agattttgatttctcagttaacccgttat-agatgggttgtaaac--agtaccaatacgttgttaataattgctctggctgata-----tgttttgtggtttca--acagGATCCTCCTGAAGAGCCTGTTATTACGATGTGTGGCCATGTCTTCTGTTATCAATGTGTATCAGAATATTTGACTGGTGATGATAACATGTGCCCTTCAG

upper sequence: AT1G50410.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv10s0071g00780.t01 (Vitis vinifera), 3'ss of exon 7
gtaagtgcataataatttagcaaatataagtagcgtatcttcaggttcgccataatctaagtccctagctgcttgttctgattttctttacccataaattccgttttattt--tctctttgcagGATCCACCAGAAGACCCTGTTGTTACTTTGTGTGGCCATATATTCTGCTATCAGTGTGTATCAGATTATATCACAGGGGATGAGGACACGTGCCCTGCGC
                        | | | |  | ||      | |     | ||  ||  ||  || |||  ||    |    ||| | |   ||| |    | ||||||  |    || ||||||||||| || ||  ||||||||||  ||||||||||| | ||||||||||||||||||||||| ||| | || || |||||  | || ||||| || |
----------------------gttttcattctcttactaatggttctattaaaaaata--tcaatatctgaatggaaagggggtctgtcctactaactcatctattatttgatgctcttacagGATCCACCTGAGGATGCTGTTGTTACCATGTGTGGCCATGTTTTCTGCTATCAGTGTGTATCAGAATATTTGACTGGTGATGACAATACATGCCCCGCAC
















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|164211642|gb|EL981805.1|EL981805
EST:     TTAGCCTGCTCAGTCGCTTAGAATCGTCTCCCATCTGTTGTGTCTGCCAT                         GATCCACCAGAAGACCCTGTTGTTACT
genomic: TTAGCCTGCTCAGTCGCTTAGAATCGTCTCCCATCTGTTGTGTCTGCCATgtaagtgcat ... ctctttgcagGATCCACCAGAAGACCCTGTTGTTACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgcttgttctgattttctttacccataaattccgttttattttctctttgcagGATCCACCAGAAGACCCTGTTGTTACTTTGTGTGGCCATATATTCTGCTATCAGTGTGTATCAGATTATATCACAGGGGATGAGGACACGTGCCCTGCGC
        ttctgat  putative branch site (score: 3)
                               ttccgttttattttct  putative PPT
                                    ttttattttctcttt  TA-rich tract