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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttaattttcttctagaaatgtcaccttttgtagcttaattatatatgcagtcacactaatgaagatttatatgttgaaaaaattatacttagctttatccatgttttacatagtttcatattatagaagttaggaagatattcaattttctttggttattctgttgtgctaatgattattttctgttgcagTTGGAAGCATGTGCACACCCTTTCTTTGATGATCTGCGAGAACCAAATGCATGCTTGCCAAATGGGCGACCATTGCCTCCATTGTTCAACTTCACTGCTC

Basic information

species Glycine max
transcript GLYMA09G40150.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G40150.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G61160.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaagttttaattttcttctagaaatgtcaccttttgtagcttaattatatatgcagtcacactaatgaagatttatatgttgaaaaaattatacttagctttatccatgttttacatagtttcatattatagaagttaggaagatattcaattttctttggttattctgttgtgctaatgattattttctg-ttgcagTTGGAAGCATGTGCACACCCTTTCTTTGATGATCTGCGAGAACCAAATGCATGCTTGCCAAATGGGCGACCATTGCCTCCATTGTTCAACTTCACTGCTC
                                                                                                                          | | |  | | ||     |  ||| |   | | |      |  | ||    | |   | |||    |||| || ||| | ||||||||||||||||| ||||| ||||||||| |||| || |  |||| |||||| |||||  || || | |||||||||||  | ||||| ||||
-------------------------------------------------------------------------------------------------------------------------gtaagagaaaaaaaaaacagttgatttctgactattaaaattgctgcttcaattcctttaatttgactctgctttcagCTTGAAGCATGTGCACACCCATTCTTCGATGATCTGAGAGACCCGAGAGCATCCTTGCCTAATGGAAGAGCACTTCCTCCATTGTTTGATTTCACAGCTC

upper sequence: GLYMA09G40150.1 (Glycine max), 3'ss of exon 11
lower sequence: AT4G00720.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaagttttaattttcttctagaaatgtcaccttttgtagcttaattatatatgcagtcacactaatgaagatttatatgttgaaaaaattatacttagctttatccatgttttacatagtttcatattatagaagttaggaagatattcaattttctttggtta-ttctgttgtgctaatgattattttctgttgcagTTGGAAGCATGTGCACACCCTTTCTTTGATGATCTGCGAGAACCAAATGCATGCTTGCCAAATGGGCGACCATTGCCTCCATTGTTCAACTTCACTGCTC
                                                                                         | | ||| |    |  |        ||| |  |  ||| | |      | ||  ||| |  ||||||||      | ||||      |   |  ||    | ||||  |||||||||| ||||||||||| |||||||||||  | || || |||||||  |   ||||||||||  || || ||||||||||||| ||||||||||| |
----------------------------------------------------------------------------------------gtaagactaaatcctg-ctggacaccacaaaactatataatctc----cttggctgatttggaattttctaactcaaattctacaaaacactttttttccatttgtta-agTTGGAAGCTTGTGCACACCCCTTCTTTGATGACTTACGGGATCCAAATGTTTCACTGCCAAATGGAAGAGCACTGCCTCCATTGTTTAACTTCACTGCCC
















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|18734580|gb|BM528264.1|BM528264
EST:     ATCTAGTGTCAAGGATGCTTCAGTATTCACCGAATCTACGATGCACTGCT                         TTGGAAGCATGTGCACACCCTTTCTTTGATGATCTGCGAGAACCAAATGCA
genomic: ATCTAGTGTCAAGGATGCTTCAGTATTCACCGAATCTACGATGCACTGCTgtaagtttta ... tctgttgcagTTGGAAGCATGTGCACACCCTTTCTTTGATGATCTGCGAGAACCAAATGCA
EST: gi|15337648|gb|BI498304.1|BI498304
EST:     ATCTAGTGTCAAGGATGCTTCAGTATTCACCGAATCTACGATGCACTGCT                         TTGGAAGCATGTGCACACCCTTTCTTTGATGATCTGCGAGAACCANATGCA
genomic: ATCTAGTGTCAAGGATGCTTCAGTATTCACCGAATCTACGATGCACTGCTgtaagtttta ... tctgttgcagTTGGAAGCATGTGCACACCCTTTCTTTGATGATCTGCGAGAACCAAATGCA
EST: gi|209727344|gb|BW655275.1|BW655275
EST:     ATCTAGTGTCAAGGATGCTTCAGTATTCACCGAATCTACGATGCACTGCT                         TTGGAAGCATGTGCACACCCTTTCTTTGATGATCTGCGAGAACCAAATGCA
genomic: ATCTAGTGTCAAGGATGCTTCAGTATTCACCGAATCTACGATGCACTGCTgtaagtttta ... tctgttgcagTTGGAAGCATGTGCACACCCTTTCTTTGATGATCTGCGAGAACCAAATGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatattcaattttctttggttattctgttgtgctaatgattattttctgttgcagTTGGAAGCATGTGCACACCCTTTCTTTGATGATCTGCGAGAACCAAATGCATGCTTGCCAAATGGGCGACCATTGCCTCCATTGTTCAACTTCACTGCTC
                              tgctaat  putative branch site (score: 2)
                                       ttattttct  putative PPT
                                 taatgattattttct  TA-rich tract