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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggataaaaagcaaaaagaaataaattatatttcttccctcaaaagctgggtttgattcatttattgggtttcagGTACTATGGAGTATGGATGATTACTCGATGTGGATCGCTTATGAAGAGTGGCTACGACATTAATAAATGGAGTCTGTGTATAATGATATTGCTTCTCGTA

Basic information

species Arabidopsis thaliana
transcript AT1G53390.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G53390.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 13
------------gtaaggataaaa--agcaaaaagaaa-taaattatatttcttccctcaaaagctgggtttgattcatttattgg-------gtttcagGTACTATGGAGTATGGATGATTACTCGATGTGGATCGCTTATGAAGAGTGGCTACGACATTAATAAATGGAGTCTGTGTATAATGATATTGCTTCTCGTA
             |    || |||  | ||    |||| |   ||||  || |    |||     |   |  |    |||  |          ||||||||||||||||||| ||| | || ||||| ||||| |||||| |||| ||||||||  |  || |  | |||  ||| |||||| | ||  |  | ||| ||
aacaaccagatgatgtttatgaaactatcattcggaaagttggttattcttgtaggatcatggattacttgcggcatattactgaaaatctttgtttcagGTACTATGGAGTGTGGCTCATAACTCGCTGTGGTTCGCTTTTGAAAAGTGGCTATAATCTTCACGATTGGGATCTTTGTATATTCATCCTCATCCTCATA
















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|19740685|gb|AU226038.1|AU226038
EST:     ATCCAAAGTGGGCTTTGGAAGCATTTGTGATAGGAAATGCTCAAAA                         GTACTATGGAGTATGGATGATTACTCGATGTGGATCGCTTATGAAGAGTGG
genomic: ATCCAAAGTGGGCTTTGGAAGCATTTGTGATAGGAAATGCTCAAAAgtaaggataa ... tgggtttcagGTACTATGGAGTATGGATGATTACTCGATGTGGATCGCTTATGAAGAGTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaattatatttcttccctcaaaagctgggtttgattcatttattgggtttcagGTACTATGGAGTATGGATGATTACTCGATGTGGATCGCTTATGAAGAGTGGCTACGACATTAATAAATGGAGTCTGTGTATAATGATATTGCTTCTCGTA
                              gtttgat  putative branch site (score: 5)
                               tttgattcatttatt  TA-rich tract