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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattatattcatgaaaagtcatctctaatttatggaatttcattgattccactttatttactgcaatatttagagtctcatgtctgtaaatagcctgcttcagtaatagattttcccgttgtcttttgtctaattattgaacaacttattggtcaagtttgatgtagaatccttgcatattcccttttttgacagGAAGAAGGAGTGGAAATAACTGTCAACTCCCTTCATCCTGGATCAATTGTTACAAATATTCTGCGATACCATGACTATATTAATG

Basic information

species Glycine max
transcript GLYMA08G01870.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G01870.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g03380.t01 (Vitis vinifera), 3'ss of exon 5
gtattatattcatgaaaagtcatctctaatttatggaatttcattgattccactttatttactgcaatatttagagtctcatgtctgtaaatagcctgcttcagtaatagattttcccgttgtcttttgtctaattattgaacaacttattggtcaagtttgatgtagaatccttgcatattcccttttttgacagGAAGAAGGAGTGGAAATAACTGTCAACTCCCTTCATCCTGGATCAATTGTTACAAATATTCTGCGATACCATGACTATATTAATG
                                                                                     | | | |  | |  |||| || | |||  | |    |  | |  |  |      || || ||| ||| ||     | || ||  ||  ||   | | || || ||  | |||||||||| ||||| |||||||  || || |||||||||||| ||||||  || ||| ||||||| |||||   || | |  |||
-------------------------------------------------------------------------------------tttcact--cttagttca-tacttgatacttctacagattatcataca------gagcagctt-ttgatctgcaattatttatcatgtttttct-tccctttattaaatagGAAGAAGGGGTGGAGATAACTGCTAATTCACTTCATCCTGGAGCAATTGCCACCAATCTTCTGCGGTACCACAGCTTTCTGGATG
















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|13181412|gb|BG352682.1|BG352682
EST:     CAAAGCTTGCTAATATTTTACATGCAAATGAGCTTGCAAGGCACTTGAAG                         GAAGAAGGAGTGGAAATAACTGTCAACTCCCTTCATCCTGGATCAATTGTT
genomic: CAAAGCTTGCTAATATTTTACATGCAAATGAGCTTGCAAGGCACTTGAAGgtattatatt ... tttttgacagGAAGAAGGAGTGGAAATAACTGTCAACTCCCTTCATCCTGGATCAATTGTT
EST: gi|31470667|gb|CD412695.1|CD412695
EST:     CAAAGCTTGCTAATATTTTACATGCAAATGAGCTTGCAAGGCACTTGAAG                         GAAGAAGGAGTGGAAATAACTGTCAACTCCCTTCATCCTGGATCAATTGTT
genomic: CAAAGCTTGCTAATATTTTACATGCAAATGAGCTTGCAAGGCACTTGAAGgtattatatt ... tttttgacagGAAGAAGGAGTGGAAATAACTGTCAACTCCCTTCATCCTGGATCAATTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaacttattggtcaagtttgatgtagaatccttgcatattcccttttttgacagGAAGAAGGAGTGGAAATAACTGTCAACTCCCTTCATCCTGGATCAATTGTTACAAATATTCTGCGATACCATGACTATATTAATG
                gtttgat  putative branch site (score: 5)
                             tccttgcatattccct  putative PPT
                                            ttttttga  TA-rich tract