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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagagaacgaaatatcacataattgttaagtctttaaacttcacattgagaactgtttatattgttttcctcttcatatggaattaggtattctcctctttaactacgtctgcactaatatagaatgccttagaagttaatattgctttgcttgggtgtattttcttgattagATCATGGCGATTGGAACACTTGCATTATGCTATAACAATGAACAAGTATTCAGAGGCGTTGTGAAACTGAGGCGAG

Basic information

species Arabidopsis thaliana
transcript AT4G34640.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G34640.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA12G04220.3 (Glycine max), 3'ss of exon 8
gttagagaacgaaatatcacataattgttaagtctttaaacttcacattgagaactgtttatattgttttcctcttcatatggaattaggt-attctcctctttaactacgtctgcactaatatagaatgccttagaagttaatattgctttgcttgggtgtattttcttgattagATCATGGCGATTGGAACACTTGCATTATGCTATAACAATGAACAAGTATTCAGAGGCGTTGTGAAACTGAGGCGAG
                                                                      | | ||||| |    ||   | |||    | | || | |    |    | |||    ||   ||   ||| | | |    ||  || |   |||    |     |||| ||||| ||||||||||||||||||||||| |||||     | || |||||||| || || ||| |||||||||
----------------------------------------------------------------------catattcattttatgtttaatgatttatgtatatagcaatagttattttcata----attttttcccagtaactttgatgtttatttgacatatgcggtga--cagATAATGGCAATTGGAACACTTGCATTATGCTACAACAACATTGAGGTCTTCAGAGGTGTAGTTAAAATGAGGCGAG

upper sequence: AT4G34640.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA11G11960.3 (Glycine max), 3'ss of exon 8
gttagagaacgaaatatcacataattgttaagtctttaaacttcacattgagaactgtttatattgttttcctcttcatatggaattaggt-attctcctctttaactacgtctgcactaatatagaatgccttagaagttaatattgctttgcttgggtgtattttcttgattagATCATGGCGATTGGAACACTTGCATTATGCTATAACAATGAACAAGTATTCAGAGGCGTTGTGAAACTGAGGCGAG
                                                                      | | ||||| | |  ||   | |||    | | |  | |    |    | |||    ||   |     || | | |    ||  || |   |||   | |||  |||| ||||| ||||||||||||||||||||||| || ||     | || |||||||| || || ||| |||||||||
----------------------------------------------------------------------catattcattttgtgtttaatgatttatgtatatcgcaatagttattttcata----atttttcccgtgtaactttgatgtttatttgacatatgc-cgtgac-agATAATGGCAATTGGAACACTTGCATTATGCTACAATAACATTGAGGTCTTCAGAGGTGTAGTTAAAATGAGGCGAG
















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|164194290|gb|ES042544.1|ES042544
EST:     TCCTTGCGTGATCCTTCCATATTTCGGTTCTGTGCCATCCCTCAG                         ATCATGGCGATTGGAACACTTGCATTATGCTATAACAATGAACAAGTA
genomic: TCCTTGCGTGATCCTTCCATATTTCGGTTCTGTGCCATCCCTCAGgttagagaac ... tcttgattagATCATGGCGATTGGAACACTTGCATTATGCTATAACAATGAACAAGTA
EST: gi|125122859|gb|EL169308.1|EL169308
EST:     TGGTTTCCTTGCGTGATCCTTCCATATTTCGGTTCTGTGCCATCCCTCAG                         ATCATGGCGATTGGAACACTTGCATTA
genomic: TGGTTTCCTTGCGTGATCCTTCCATATTTCGGTTCTGTGCCATCCCTCAGgttagagaac ... tcttgattagATCATGGCGATTGGAACACTTGCATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatagaatgccttagaagttaatattgctttgcttgggtgtattttcttgattagATCATGGCGATTGGAACACTTGCATTATGCTATAACAATGAACAAGTATTCAGAGGCGTTGTGAAACTGAGGCGAG
                agttaat  putative branch site (score: 4)
                                        tattttctt  putative PPT
           ttagaagttaatatt  TA-rich tract