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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttactactttcgatctttaactatgtgtatcttatctttaatcgtcttctcaaatctgattggatccttttttttgtttctttcagAAGTACACAACCTCGATTTCAGTTTATTGTGATGAATCGTCGTAATACAG

Basic information

species Arabidopsis thaliana
transcript AT1G08370.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08370.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G39120.1 (Glycine max), 3'ss of exon 2
------gttactactttcgatctttaactatgtgtatct-tatctttaatcgtct-----tctcaaatctgattggatccttttt-------tttgtttc-tttcagAAGTACACAACCTCGATTTCAGTTTATTGTGATGAATCGTCGTAATACAG
       ||  | || |   | ||     |     ||   |  ||||||   |||     | |  | || || |  ||| | |         |||||||  |||||| |  |||||||||||||||||||||||||||||||| ||||| ||||| |
gttcatattttttctcttttttttatgtcacacaaattcatcgctttaacgatctaagtttttggattccgagtttatcttatgcctatggctttgtttaatttcagGAACACACAACCTCGATTTCAGTTTATTGTGATGAACCGTCGCAATACTG
















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|152036002|gb|AU237449.2|AU237449
EST:     AGTCGTAAGGACGTTGAAGGATCTTTGTTTGTTGTCAAAAG                         AAGTACACAACCTCGATTTCAGTTTATTGTGATGAATCGTCGTAATACAG
genomic: AGTCGTAAGGACGTTGAAGGATCTTTGTTTGTTGTCAAAAGgttactactt ... tttctttcagAAGTACACAACCTCGATTTCAGTTTATTGTGATGAATCGTCGTAATACAG
EST: gi|125060140|gb|EL128817.1|EL128817
EST:     GGAGTCGTAAGGACGTTGAAGGATCTTTGTTTGTTGTCAAAAG                         AAGTACACAACCTCGATTTCAGTTTATTGTGATGAATCG
genomic: GGAGTCGTAAGGACGTTGAAGGATCTTTGTTTGTTGTCAAAAGgttactactt ... tttctttcagAAGTACACAACCTCGATTTCAGTTTATTGTGATGAATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatctttaatcgtcttctcaaatctgattggatccttttttttgtttctttcagAAGTACACAACCTCGATTTCAGTTTATTGTGATGAATCGTCGTAATACAG
                      atctgat  putative branch site (score: 4)
                                 tccttttttttgtttc  putative PPT
                                    ttttttttgtttcttt  TA-rich tract