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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtttatgttacttttgagctgagagtttcttcatgaaatggtcaagtcgaaaggatgactctgtattaacatgacattaccatatttttcagGTTTCGTCTTCCCATTGCATATCATGGACGGGCATCATCTATTGTCATCTCTGGGACTGACATTATTCGACCAAG

Basic information

species Arabidopsis thaliana
transcript AT1G12050.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G12050.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv00s0187g00300.t01 (Vitis vinifera), 3'ss of exon 1
gtgcgtttatgttactttt----gagctgagagtttcttca-tgaaatggtcaagt-----------cgaaaggatgactctgtattaacatgacattaccat-atttttcagGTTTCGTCTTCCCATTGCATATCATGGACGGGCATCATCTATTGTCATCTCTGGGACTGACATTATTCGACCAAG
||| ||  || | |  |||    ||  ||  ||||  | || | |||  || | ||           | |||   | | |||  |  ||    |  |  | ||  ||||||||||| |  ||||| ||||| |||||||| |||||||| |||||||| || ||||| |||||  ||||||| |||| 
gtgtgtcaatttgaaatttatgggaaatggtagttggtccagtaaaacagtaatgttattttgtgaacaaaaattttaatcttcaagaatggaatttgtcaattgtttttcagGTTCCACCTTCCTATTGCTTATCATGGGCGGGCATCGTCTATTGTTATATCTGGAACTGATCTTATTCGGCCAAA
















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|164129419|gb|ES010412.1|ES010412
EST:     AACTGCGGACTTATGTTCCGTGGGCCTGAGAATGCGATAAACCCAAATTG                         GTTTCGTCTTCCCATTGCATATCATGGACGGGCAT
genomic: AACTGCGGACTTATGTTCCGTGGGCCTGAGAATGCGATAAACCCAAATTGgtgcgtttat ... tatttttcagGTTTCGTCTTCCCATTGCATATCATGGACGGGCAT
EST: gi|124839520|gb|EH923959.1|EH923959
EST:     ATAAACCCAAATTG                         GTTTCGTCTTCCCATTGCATATCATGGACGGGCATCATCTATTGTCATCTC
genomic: ATAAACCCAAATTGgtgcgtttat ... tatttttcagGTTTCGTCTTCCCATTGCATATCATGGACGGGCATCATCTATTGTCATCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggtcaagtcgaaaggatgactctgtattaacatgacattaccatatttttcagGTTTCGTCTTCCCATTGCATATCATGGACGGGCATCATCTATTGTCATCTCTGGGACTGACATTATTCGACCAAG
                          tattaac  putative branch site (score: 1)
                                             tatttttc  putative PPT
                                      attaccatattttt  TA-rich tract