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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctctcttaacatgaaatctcattgactcaatttttttcccaatagctaactaaaagaaccactctctcctcctctttcagagTTCCAAACATCAAATTTAACGTGGCCAAAATGATGCAATCTCTCATTCCGATAGTCGACCAAGCG

Basic information

species Arabidopsis thaliana
transcript AT1G13320.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13320.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: PP1S214_34V6.1 (Physcomitrella patens), 3'ss of exon 10
---------------------------------------gtctctctcttaacatgaaatctcattgactcaatttttttcccaatagctaactaaaagaaccactctctcctcctctttcagagTTCCAAACATCAAATTTAACGTGGCCAAAATGATGCAATCTCTCATTCCGATAGTCGACCAAGCG
                                        ||  ||   |   |   | |   |||   |   ||||     |  |   ||| ||    |  | || |    | |  |  ||| |||||||||||||| |||||||| ||||||||| |||||||  | |||||||| || ||     | 
gtaccttagtttgctctccatatgtaatggaacttgattatcagtcaactgcaacagattggtattaggtaggttttcggatct-tgtgtaattagctaattctctgtgat-tgcgatgacagGGTTCCAAACATCAAGTTTAACGTCGCCAAAATGCTGCAATCCATGATTCCGATTGTTGATTCCACT

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: PP1S117_137V6.1 (Physcomitrella patens), 3'ss of exon 10
-------------------------------gtctctctcttaacatgaaatctcattgactcaatttttttcccaatagctaa--ctaaaa----gaacc-actctctcctcctcttt-----cagagTTCCAAACATCAAATTTAACGTGGCCAAAATGATGCAATCTCTCATTCCGATAGTCGACCAAGCG
                                  ||     | |||||||     ||    |  |  | |    ||   | |||  ||  |     || |  ||||| |  || | |       ||| ||||||||||||||||||||||| ||||||||| | |||||| | ||||| ||||| ||     | 
gtacacttgtatgttctttttgtcgttgaattattcaaatgttacatgaacatgtatcatgtgtacatgtggggcatagggtaaatcttgagtgttgagcttactcttttatcttttgggatgacagGGTTCCAAACATCAAATTTAACGTCGCCAAAATGCTCCAATCTATGATTCCTATAGTTGAATCCACA
















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|116425639|gb|EG468231.1|EG468231
EST:     CATGTTCCAAACTCTTACCTGCGGTAATAACTGCATCTAAAGACAG--AG                         TTCCAAACATCAAATTTAACGTGGCCAAAATGATGCAATCTCTCATTCCGA
genomic: CATGTTCCAAACTCTTACCTGCGGTAATAACTGCATCTAAAGACAGGCAAgtctctctct ... tctttcagagTTCCAAACATCAAATTTAACGTGGCCAAAATGATGCAATCTCTCATTCCGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatttttttcccaatagctaactaaaagaaccactctctcctcctctttcagagTTCCAAACATCAAATTTAACGTGGCCAAAATGATGCAATCTCTCATTCCGATAGTCGACCAAGCG
                    aactaaa  putative branch site (score: 2)
                               ccactctctcctcctc  putative PPT
                   taactaaaa  TA-rich tract