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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaagaaacaactaggagttatttgttggatttgcagtgagagtttcagatttatatgcttactgtgagaatgcctttgtttcacagAGTTTGTGGAGGACATAGATCTCTTGATCAGAAAGGCTGAACGGTGTTTAGAAGCCGGGGCAGACACTATTATGATAGATGCGGATGATGTCTGCAAATA

Basic information

species Arabidopsis thaliana
transcript AT4G21320.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G21320.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv00s1274g00010.t01 (Vitis vinifera), 3'ss of exon 2
---gtaagaag-----aaacaactaggagttatttgttggatttgcagtgagagtttcagatttatatgct--tactgtgagaatgcctttgtttcacagAGTTTGTGGAGGACATAGATCTCTTGATCAGAAAGGCTGAACGGTGTTTAGAAGCCGGGGCAGACACTATTATGATAGATGCGGATGATGTCTGCAAATA
     | |||      ||||  |  |  ||    | | || |||  |   |    |    |  | || | |   ||||||        ||  ||| |||||  | || || ||  | |||||||||||||||| ||||||  | || |||||||| |||||||| |  || ||||| ||||| |||||||||||||||||
tataaaggaaatccccaaactccatgacgtaggatatggggtttctacccatttatgagtaaatgtaggataacactgtgttttaattttccttttacagAAATGGTTGAAGATGTTGATCTCTTGATCAGAAGGGCTGAGAGATGCTTAGAAGCTGGGGCAGATATGATAATGATTGATGCTGATGATGTCTGCAAATA
















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|19878817|gb|AU239648.1|AU239648
EST:     TAGGAATAGAGCATTTGGTTCCTATGTTGTTCCAGAACCTCGGTCAAGCG                         AGTTTGTGGAGGACATAGATCTCTTGATCAGAAAGGCTGAACGGNGTTTAG
genomic: TAGGAATAGAGCATTTGGTTCCTATGTTGTTCCAGAACCTCGGTCAAGCGgtaagaagaa ... tgtttcacagAGTTTGTGGAGGACATAGATCTCTTGATCAGAAAGGCTGAACGGTGTTTAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcagtgagagtttcagatttatatgcttactgtgagaatgcctttgtttcacagAGTTTGTGGAGGACATAGATCTCTTGATCAGAAAGGCTGAACGGTGTTTAGAAGCCGGGGCAGACACTATTATGATAGATGCGGATGATGTCTGCAAATA
                        tgcttac  putative branch site (score: 2)
                                         cctttgtttc  putative PPT
           tttcagatttatat  TA-rich tract