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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttttcctgatctctctatctctcccattttcattggatctgcatgatcattatcgtttcattcaattgtgtgattttgggaaattgatttgtgatttgcagCGACAACTCTCACGGGATTTCACTTTGCTCTTACTGCTCTCGTTGGTATGGTGTCGAATGCGACTGGTTTATCAGCATCTAAGCATGTTCCTCTTTGGGA

Basic information

species Arabidopsis thaliana
transcript AT1G21070.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G21070.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 1
gtttgttttcctgatctctctatctctcccattttcattggatctgcatgatcattatcgtttcattcaattgtgtgattttgggaaattgatttgtgattt---gcagCGACAACTCTCACGGGATTTCACTTTGCTCTTACTGCTCTCGTTGGTATGGTGTCGAATGCGACTGGTTTATCAGCATCTAAGCATGTTCCTCTTTGGGA
             |  | ||| ||||   |||    |||  || ||||  |   |||   ||  |||    ||     | |       |   ||  | ||||    |||| |   |  | || || || ||||||||  | ||||||||||||||| ||||||| ||||| || ||||  ||||| || |||||||||||| | |||||
-------ggaagaagatttctgtctcggacatgacaattt-atgtgca-aacttttaatattagattatcctgccctctctcaacttttcttttcttaattttttccagCCAGTTCCTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGGTGTCAAATGCTACCGGTTACTCAGCGTCAAAGCATGTTCCTATGTGGGA

upper sequence: AT1G21070.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA11G00210.2 (Glycine max), 3'ss of exon 1
gtttgttttcctgatctctctatctctcccattttcattgg-atctgcatgatcattatcgtttcattcaattgtgtgattttgggaaattgatttgtgatttgcagCGACAACTCTCACGGGATTTCACTTTGCTCTTACTGCTCTCGTTGGTATGGTGTCGAATGCGACTGGTTTATCAGCATCTAAGCATGTTCCTCTTTGGGA
             |  | | | |||||  |||    |||    |    |   | | |||  |      |  |    |  |||       ||  ||  |  ||| |||| |   |  | || || || ||||||||  | ||||||||||||||| ||||||| ||||| || ||||  ||||| || |||||||||||| | |||||
-------ggagaaagatttgtgtctctgacatgacaatttatgtgcaaacttttaatattatcctgccctctctcatcttttcttttcttttcttaattttttccagCCAGTTCGTTAACTGGGTTCCACTTTGCCGTAACTGCTCTCGTTGGTCTGGTGTCAAATGCTACCGGTTACTCAGCGTCAAAGCATGTTCCTATGTGGGA
















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|19877654|gb|AU238485.1|AU238485
EST:     CTAATAAACAACTAATGTCATCATCTGGATTAGGCTTCAGCTTCG                         CGACAACTCTCACNGGGATTTCACTTTGCTCTTACTGCTCTCGTTGGTATG
genomic: CTAATAAACAACTAATGTCATCATCTGGATTCGGCTTCAGCTTCGgtttgttttc ... tgatttgcagCGACAACTCTCAC-GGGATTTCACTTTGCTCTTACTGCTCTCGTTGGTATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattatcgtttcattcaattgtgtgattttgggaaattgatttgtgatttgcagCGACAACTCTCACGGGATTTCACTTTGCTCTTACTGCTCTCGTTGGTATGGTGTCGAATGCGACTGGTTTATCAGCATCTAAGCATGTTCCTCTTTGGGA
                                   aattgat  putative branch site (score: 4)
                                  aaattgattt  TA-rich tract