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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcccatccaaagatctgaagcaattaactgaattcatacaccattatcttgacacaacttatttgcatgtcatccatatcaagGCTAATACTGAAGTTATTGCTGGAGAAGGGTTGATTGTAACAGCAGGGGCTATAGATTGTCACGTGCATTATATATGCCCTCAATTAGTAGATGAGGCCA

Basic information

species Glycine max
transcript GLYMA05G27840.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G27840.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G67550.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagttcccatccaaagatctgaagcaattaactgaattcatacaccattatcttgacaca---acttatttgcatgtcatccatatca--agGCTAATACTGAAGTTATTGCTGGAGAAGGGTTGATTGTAACAGCAGGGGCTATAGATTGTCACGTGCATTATATATGCCCTCAATTAGTAGATGAGGCCA
                  || |    || |  |   ||  ||   |  |  || |||    |   ||||| || | | |  |  || |    ||  ||| ||||| |||||||||||||||||  |||||||||| ||||| ||||| |||||||| || ||||  ||||| |||||||| ||  |||| ||  
---------------gtaatttatttcactgtataaaacacagtaaataccattttggagtacttacttactttc-tcttgtttattttcttagAATAAGACTGAGGTTATTGCTGGAGAAGGAATGATTGTAACTGCAGGAGCTATTGATTGTCATGTACATTTCATATGTCCTCAATTGGTGTATGAAGCAG

upper sequence: GLYMA05G27840.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 8
gtaagttcccatccaaagatctgaagcaattaac-------tgaattcatacaccattatcttgacacaacttat--ttgcatgtcatccatatcaagGCTAATACTGAAGTTATTGCTGGAGAAGGGTTGATTGTAACAGCAGGGGCTATAGATTGTCACGTGCATTATATATGCCCTCAATTAGTAGATGAGGCCA
||| ||| |||||  |  ||   | | || ||         ||| |||| |      ||  | | |||  ||| |  || | | |  |    |   ||| ||  || || || || |||||||||||  ||||||| || |||||||| ||||| || || ||||| | ||||||||||||||| |   |||| ||||
gta-gtttccatctgactatgcaatggaagtagtggagatatgatttcaaatcgtgctaa-tgggcactgcttgtacttcctttttcttttaaatcagGTTAGCACCGAGGTCATCGCTGGAGAAGGAATGATTGTGACTGCAGGGGCCATAGACTGCCATGTGCACTTTATATGCCCTCAATTGGCCTATGAAGCCA
















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|298178981|gb|HO024716.1|HO024716
EST:     CAGGAAATCCAGACATCATGGATGATGTATTTTTTAATATGATCATTGGG                         GCTAATACTGAAGTTATTGCTGGAGAAGGGTTGATTGTAACAGCAGGGGCT
genomic: CAGGAAATCCAGACATCATGGATGATGTATTTTTTAATATGATCATTGGGgtaagttccc ... ccatatcaagGCTAATACTGAAGTTATTGCTGGAGAAGGGTTGATTGTAACAGCAGGGGCT
EST: gi|7147068|gb|AW508990.1|AW508990
EST:     CAGGAAATCCAGACATCATGGATGATGTATTTTTTAATATGATCATTGGG                         GCTAATACTGAAGTTATTGCTGGAGAAGGGTTGATTGTAACAGCAGGGGCT
genomic: CAGGAAATCCAGACATCATGGATGATGTATTTTTTAATATGATCATTGGGgtaagttccc ... ccatatcaagGCTAATACTGAAGTTATTGCTGGAGAAGGGTTGATTGTAACAGCAGGGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaattcatacaccattatcttgacacaacttatttgcatgtcatccatatcaagGCTAATACTGAAGTTATTGCTGGAGAAGGGTTGATTGTAACAGCAGGGGCTATAGATTGTCACGTGCATTATATATGCCCTCAATTAGTAGATGAGGCCA
                  tcttgac  putative branch site (score: 3)
                           aacttattt  TA-rich tract