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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgcatattctttttcttcttcttcttctcactattcattctttcatcttttactcactcattctctcttattgaatttccttcagGCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTCTACAAACTCGCTCTCAAAAATCTCGCCATCCAAACCGTTTCCCCAAG

Basic information

species Glycine max
transcript GLYMA06G13260.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G13260.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0012g02530.t01 (Vitis vinifera), 3'ss of exon 2
gtgcgcatattctttttcttctt---------cttcttctcactattcattctt----tcatcttttactcact----cattctctcttattgaatttccttcagGCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTCTACAAACTCGCTCTCAAAAATCTCGCCATCCAAACCGTTTCCCCAAG
     || |||  || ||||            |  ||| | |  |  |||| ||    |  | ||  | ||  |      |  ||| |||||     |  ||||||||||||||||| | | |||||| ||||||||||||| |||| || |  | |||||| |  | || |||||| |     |||||   |||||  ||||
-----caaatttgttgtcttaccaggaggagccagcttattaagaagcattgttaccattgtgttggattctttatgatgtcatcttttatttctcgtttttcagGCATGGACAGATGTGAAATTAACATCTCCTCAGCTCTCCAGAGAAACTATGTACAAAATGTCACTAAAAAATTTAATGCTCCAATGTGTTTCTTCAAG
















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|213619750|gb|DB967372.1|DB967372
EST:     CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGG                         GCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC
genomic: CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGGgtgcgcatat ... tttccttcagGCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC
EST: gi|14990712|gb|BI316385.1|BI316385
EST:     CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGG                         GCATGGACAGATATCAGATTAACCTCTCCTCATCTCTGCAGACAAGCCCTC
genomic: CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGGgtgcgcatat ... tttccttcagGCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC
EST: gi|213592699|gb|DB955829.1|DB955829
EST:     CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGG                         GCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC
genomic: CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGGgtgcgcatat ... tttccttcagGCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC
EST: gi|298197323|gb|HO044802.1|HO044802
EST:     CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGG                         GCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC
genomic: CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGGgtgcgcatat ... tttccttcagGCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC
EST: gi|151395244|gb|EV265115.1|EV265115
EST:     CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGG                         GCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAAACAAGCCCTC
genomic: CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGGgtgcgcatat ... tttccttcagGCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC
EST: gi|22931632|gb|BU548771.1|BU548771
EST:     CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGG                         GCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC
genomic: CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGGgtgcgcatat ... tttccttcagGCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC
EST: gi|14990664|gb|BI316337.1|BI316337
EST:     CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGG                         GCATGGACAGATATCATATTAACCTCTCCTCATCTCTGCAGACAAGCCCTC
genomic: CCATTATCAAACCAATTCATCACGAAATCAAACCCGATTCCTGGGCATGGgtgcgcatat ... tttccttcagGCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattcattctttcatcttttactcactcattctctcttattgaatttccttcagGCATGGACAGATATCAGATTAACCTCTCCTCAGCTCTGCAGACAAGCCCTCTACAAACTCGCTCTCAAAAATCTCGCCATCCAAACCGTTTCCCCAAG
                    tactcac  putative branch site (score: 1)
                                             tttccttc  putative PPT
                                     ttattgaattt  TA-rich tract