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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaggcctcttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtattttctacatcgatataaatgaaccttccttctatttgcagAATAAATGCAATGTCGGATATGCTTTCATCAACCTTATCGAACCTGAAAATATTGTTCCGTTTTATAAG

Basic information

species Arabidopsis thaliana
transcript AT5G07290.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G07290.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G451716_T01 (Zea mays), 3'ss of exon 12
gtatgcaggcctcttacctgttttt-tcatctaatggag-tctaatgcagccttatagcttagggtat-tttctacatcgatataaatgaaccttccttctatttgcagAATAAATGCAATGTCGGATATGCTTTCATCAACCTTATCGAACCTGAAAATATTGTTCCGTTTTATAAG
||  |  || ||  ||   || ||  | | |  || |   | ||||    |||  |   ||      |   | |   | |   ||||      |    || |||| |||||||| |||||||| || ||||| ||||||||| | ||| | ||||| ||||||||||| |||||||||
gtgagt-ggtctggtattagtcttggttagcagatagttctttaattttacctgcttctttgttacttgcatgtttgttggactaaacattaataatctccattttcagAATAAGTGCAATGTTGGTTATGCATTCATCAACATGATCAATCCTGACAATATTGTTCCATTTTATAAG

upper sequence: AT5G07290.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 2
gtatgcaggcctcttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtattt-tctacat-cgata-taaatgaaccttccttctatttgcagAATAAATGCAATGTCGGATATGCTTTCATCAACCTTATCGAACCTGAAAATATTGTTCCGTTTTATAAG
                        |  ||  |||  |    |   |    |  ||| | ||  || || ||| |    | || |||||||        ||  ||| ||||||||||| |||||||| ||||||||||||||| | | | | ||| |  ||||  ||||||||||| ||
-----------------------gtagattgaatttaactcataaccttgtattagttgagactacttgtctgctcatgttactaaatgagatcaatctcctttt-cagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG
















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|116455509|gb|EG498101.1|EG498101
EST:     AGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAG                         AATAAATGCAATGTCGGATATGCTTTCATCAACCTTATCGAACCTGAAAAT
genomic: AGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggc ... ctatttgcagAATAAATGCAATGTCGGATATGCTTTCATCAACCTTATCGAACCTGAAAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatagcttagggtattttctacatcgatataaatgaaccttccttctatttgcagAATAAATGCAATGTCGGATATGCTTTCATCAACCTTATCGAACCTGAAAATATTGTTCCGTTTTATAAG
                                     ccttccttctatttgc  CT-rich tract
                          atataaatgaa  TA-rich tract