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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgagattttgtcgtttgttttctccgaaaaatgtagcatagcaaggatgtgatggtctaaaatcttctttatgtagTTATGCTTTGAAACTGAGGAGAGTGCGAGAAGACTCCTAACTAATGTAGCATGTTTACTGAAACCAGGGGGTTATTTTTTCGGTATCACTCCTGACTCGT

Basic information

species Arabidopsis thaliana
transcript AT3G52210.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G52210.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G41590.1 (Glycine max), 3'ss of exon 4
------------------------gtttgagattttgtcgtttgttttctccgaaaaatgtagcatagcaaggatgtgatggtctaaaatcttctttatgtagTTATGCTTTGAAACTGAGGAGAGTGCGAGAAGACTCCTAACTAATGTAGCATGTTTACTGAAACCAGGGGGTTATTTTTTCGGTATCACTCCTGACTCGT
                          ||   |||||||  |||  ||  ||    ||   | || ||       | |  || | ||  ||||   | ||| || | || ||||| ||||| ||||  ||  | | ||| ||   ||||||  ||| | | |||||||| |||||||||||| | ||||| ||||||||||| |
cttgcaacatctgcagtcattatctctttgaattttgtgttttagttaatcatctaagatttgcttattggtcctcttctgat-tagcatctc--taatgcagCTGTGTTTTGAGACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCATCTCTGCTGAAACCTGGGGGTTATTTTCTTGGTATTACTCCTGACTCAT

upper sequence: AT3G52210.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G13240.1 (Glycine max), 3'ss of exon 4
-----------------------gtttga-gattttgtcgtttgttttctccgaaaaatgtagcatagcaaggatgtgatggtctaaaatcttctttatgtagTTATGCTTTGAAACTGAGGAGAGTGCGAGAAGACTCCTAACTAATGTAGCATGTTTACTGAAACCAGGGGGTTATTTTTTCGGTATCACTCCTGACTCGT
                        | ||   |||||||  |||  ||  |||   ||   | || |        | |  || | ||  ||||   | ||| |||| || ||||| ||||| ||||  ||  | | ||| ||   ||||||  | | | | |||||||| |||||||||||| | ||||| ||||||||||| |
gttgcaaaatttgcaggcattagctctgtcaattttgtgttttagttaatcctctaagatttgcttgttggtcctcttctgat-tagcatctc--taatgcagTTGTGTTTTGAGACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCTTCTCTGCTGAAACCTGGGGGTTATTTTCTTGGTATTACTCCTGACTCAT
















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|86072179|gb|DR367936.1|DR367936
EST:     AGAAGAAATTGGAGCAGGCTGATTTAGTTTCTTGTTGGCGCCATCTCCAG                         TTAAGCTTTGAAACTGAGGAGAGTGCGAGAAGACTCCTAACTAATGTAGCA
genomic: AGAAGAAATTGGAGCAGGCTGATTTAGTTTCTTGTTGGCGCCATCTCCAGgtttgagatt ... ctttatgtagTTATGCTTTGAAACTGAGGAGAGTGCGAGAAGACTCCTAACTAATGTAGCA
EST: gi|86072178|gb|DR367935.1|DR367935
EST:     AGAAGAAATTGGAGCAGGCTGATTTAGTTTCTTGTTGGCGCCATCTCCAG                         TTATGCTTTGAAACTGAGGAGAGTGCGAGAAGACTCCTAACTAATGTAGCA
genomic: AGAAGAAATTGGAGCAGGCTGATTTAGTTTCTTGTTGGCGCCATCTCCAGgtttgagatt ... ctttatgtagTTATGCTTTGAAACTGAGGAGAGTGCGAGAAGACTCCTAACTAATGTAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctccgaaaaatgtagcatagcaaggatgtgatggtctaaaatcttctttatgtagTTATGCTTTGAAACTGAGGAGAGTGCGAGAAGACTCCTAACTAATGTAGCATGTTTACTGAAACCAGGGGGTTATTTTTTCGGTATCACTCCTGACTCGT
                                 gtctaaa  putative branch site (score: 3)
                                         tcttctttat  CT-rich tract
                                    taaaatcttctttat  TA-rich tract