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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttcatcagtctctttaatattttataacactagctttgctcaaacagagtttattcttttctcgaaccactgttttgatccgtgtgtctattttgatgtttgtgtttgtagGTGGCAAGTGTAACGTTCGACTTGCTCTTGCTTCTGGTTCTAGGATCATACTTGATAGTGCTTTTCAGTTTCCTCGTCATCACAACTCGG

Basic information

species Arabidopsis thaliana
transcript AT3G44330.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G44330.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 12
gtactttcatcagtctctttaatattttataacactagctttgctcaaacagagtttattcttttctcgaaccactgttttgatccgtgtgtctattttgatgtttgtgtttgtagGTGGCAAGTGTAACGTTCGACTTGCTCTTGCTTCTGGTTCTAGGATCATACTTGATAGTGCTTTTCAGTTTCCTCGTCATCACAACTCGG
      |    | ||     || |   |  ||  | ||   |  |  ||||    | ||  || | |  |   | ||  |  ||   | |    |  |  ||  ||||  ||| |||| || |||||||| || |||||  | ||||| || || || |||||||| ||||||||||| ||||| || || |||||||||||| ||
------ttcctattcatgagaaaaacattcaaagcaag---tagtagaaca----tgataattgtatttatttattgcatgaatttttat---caagtcaattgttgttattgcagGTTGCTAGTGTAACATTTGACTTATTGTTGCTCCTAGTGCTGGGATCATATTTGATAGTGCTCTTCAGCTTTCTTGTCATCACAACTAGG
















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|125317986|gb|EL332071.1|EL332071
EST:     AAGTTTCACCTTTTACGACTCGACAAAGGCTAGCCTTAATATATACCAG                         GTGGCAAGTGTAACGTTCGACTTGCTCTTGCTTCTGGTTCTAGGATCATAC
genomic: AAGTTTCACCTTTTACGACTCAACAAAGGCTAGCCTTAATATATACCAGgtactttcat ... gtgtttgtagGTGGCAAGTGTAACGTTCGACTTGCTCTTGCTTCTGGTTCTAGGATCATAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctcgaaccactgttttgatccgtgtgtctattttgatgtttgtgtttgtagGTGGCAAGTGTAACGTTCGACTTGCTCTTGCTTCTGGTTCTAGGATCATACTTGATAGTGCTTTTCAGTTTCCTCGTCATCACAACTCGG
                                  ttttgat  putative branch site (score: 4)
                                tattttgat  TA-rich tract