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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtctttatctcaagtttctgttaagtattgcaaataaaattattagatttgatatgcttttcatacttaattttgatttctattaatgacatttatttttcagGCAACTGCTACTCAGAGGGTCCAAAATGATCTGATAGAGATGTTGCATATTCCTAGATGTGTCAAATTCGTCAGCACTGTCAATAGGCCAAACTTGTTTT

Basic information

species Glycine max
transcript GLYMA09G34860.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G34860.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os11g48090.3 (Oryza sativa), 3'ss of exon 6
gtacgtctttatctcaagtttctgttaagtattgcaaataaaattattagatttgatatgcttttcatacttaattttgatttctattaa----tgacatttatttttcagGCAACTGCTACTCAGAGGGTCCAAAATGATCTGATAGAGATGTTGCATATTCCTAGATGTGTCAAATTCGTCAGCACTGTCAATAGGCCAAACTTGTTTT
                            |  |||| || | |||    |  ||| | |    ||  ||  |||| | | || |  | |||    ||    || |||| ||||||||||| ||  | |  || |||| |||| ||||||||||| | ||||| |||||||||||||| || ||||||||  | || ||||| ||| | || |
--------------------------gtgagttgcgaaaataatatccattttttacaataattaaat-tttaactgtaatgtgaaataaggcctgcttctttttttgcagGCAACTGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATCCCTAGATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCT

upper sequence: GLYMA09G34860.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G31360.1 (Arabidopsis thaliana), 3'ss of exon 5
gtacgtctttatctcaagtttctgttaagtattgcaaataaaattattagatttgatatgct---tttcatacttaattttgatttctattaatgacatttatttttcagGCAACTGCTACTCAGAGGGTCCAAAATGATCTGATAGAGATGTTGCATATTCCTAGATGTGTCAAATTCGTCAGCACTGTCAATAGGCCAAACTTGTTTT
     ||  |   |  ||  |  || || |  |  ||   ||  | ||| || |  | ||     ||  ||| || |||||  |    |||  | |  | | | || |||||||||||||| ||||  || ||||||||||||||||||||| |||||||||||| ||| |||||||| || |||| ||| || ||||||||  | ||||
-----tcagtgggtgcagaat--gtcaaattctataac--aatcttttaaatattttgtggaaggttgaatatttcattttt-tcctaattctttatgtctctattgcagGCAACTGCTACACAGAAAGTTCAAAATGATCTGATAGAGATGCTGCATATTCCTAAATGCGTCAAATTTGTGAGCAGTGTTAACAGGCCAAATCTCTTTT
















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|16276851|gb|BI942077.1|BI942077
EST:     TCAGTATTCTCAAGACACAGTTCCCTCGTGTTCCTATTGTTGCTTTGACT                         GCAACTGCTACTCAGAGGGTCCAAAATGATCTGATAGAGATGTTGCATATT
genomic: TCAGTATTCTCAAGACACAGTTCCCTCGTGTTCCTATTGTTGCTTTGACTgtacgtcttt ... tatttttcagGCAACTGCTACTCAGAGGGTCCAAAATGATCTGATAGAGATGTTGCATATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatatgcttttcatacttaattttgatttctattaatgacatttatttttcagGCAACTGCTACTCAGAGGGTCCAAAATGATCTGATAGAGATGTTGCATATTCCTAGATGTGTCAAATTCGTCAGCACTGTCAATAGGCCAAACTTGTTTT
                                tattaat  putative branch site (score: 2)
                                           tttatttttc  putative PPT
              atacttaattttgatt  TA-rich tract