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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtagtgtgattcaaagggtttaactatatgtcatctggtttacaatggcttctcttacacttacactttttccatgaatcaccttgtagATATCCCAAATGAGCCTGACTTTCAGGGAAATCATATACAACTACCGGAAGCAACCACAGTGTAAACCATTAGTTTTCCGCAGCGTTTATGTGGATGCGT

Basic information

species Arabidopsis thaliana
transcript AT3G12280.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G12280.2 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 13
gtgagtagtgtgattcaaagggtttaactatatgtcatctggtttacaatggcttctcttacacttacactttttccatgaatcaccttgtagATATCCCAAATGAGCCTGACTTTCAGGGAAATCATATACAACTACCGGAAGCAACCACAGTGTAAACCATTAGTTTTCCGCAGCGTTTATGTGGATGCGT
       || || |   |     ||   |    || ||  | | | |||    || ||||  | |    ||||  |||||  |   | || |||| || ||||||| |||||| ||||||||||| ||  |||||||| ||||||| ||||| || || |||  | ||||||| || || | ||| |||  ||
-------gtttgctgttagaaacttg--tgagagttattggttgttcaacca-ttttcttttaatccttctttgcccatgtttttgcctgcagATCTCTCAAATGAACCTGACCTTCAGGGAAATAATTCACAACTACAGGAAGCAGCCACAATGCAAGCCACAAATTTTCCGTAGTGTGTTTGTTGATTGGT
















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|125032052|gb|EL104321.1|EL104321
EST:     GGAGTGGCCAAG                         ATATCCCAAATGAGCCTGACTTTCAGGGAAATCATATACAACTACCGGAAG
genomic: GGAGTGGCCAAGgtgagtagtg ... caccttgtagATATCCCAAATGAGCCTGACTTTCAGGGAAATCATATACAACTACCGGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggtttacaatggcttctcttacacttacactttttccatgaatcaccttgtagATATCCCAAATGAGCCTGACTTTCAGGGAAATCATATACAACTACCGGAAGCAACCACAGTGTAAACCATTAGTTTTCCGCAGCGTTTATGTGGATGCGT
                       cacttac  putative branch site (score: 2)
                                            tcacctt  putative PPT
     ttacaat  TA-rich tract