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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttccataatttgatgcaccaatcgtatatatttagactatgtttgtttcatctaattaatttttttgaaaataatcaattttgttttaaatttttcttgacaaaagaatattatttcttcgatcaaaaagaactaaatacattggcaaatgattaagttgcttacatcaagtgtttactattgtacacagGCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCCAACTTTCTCATGTGCAATGAGCAACGTGCTTCCTGCCATGACTTTTGTT

Basic information

species Glycine max
transcript GLYMA06G46740.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G46740.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G07050.1 (Arabidopsis thaliana), 3'ss of exon 2
gttagttccataatttgatgcaccaatcgtatatatttagactatgtttgtttcatctaattaatttttttgaaaataatcaattttgtt-ttaaatttttcttgacaaaagaatattatttcttcgatcaaaaagaactaaatacattggcaaatgattaagttgcttacatcaagtgtttactattgtacacagGCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCCAACTTTCTCATGTGCAATGAGCAACGTGCTTCCTGCCATGACTTTTGTT
                                                                                     |||||  | |||   | |    |   || ||   | |||| |  |||||  ||        ||| | ||  || | |     ||        | |  || |   |  ||||||||||||| |||||||||||||||||    ||| ||||||  || |||||||| |||||||| || ||||| ||| ||||||| |||||||| ||| | 
------------------------------------------------------------------------------------gttgttacttaatcactgtctctatttgactaccttgtctttg--caaaagcaa--------attagaaagagagttaacatttttttctttctataaacaa--atttacagGCCAGTGATCGATCAAAACTTCTACTACATGGGGCTGAAATATACGTCCCCAACGTTCTCATGCGCCATGAGTAACATGCTTCCGGCCATGACCTTTATC

upper sequence: GLYMA06G46740.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0084g00090.t01 (Vitis vinifera), 3'ss of exon 2
gttagttccataatttgatgcaccaatcgtatatatttagactatgtttgtttcatctaattaatttttttgaaaataatcaattttgttttaaatttttcttgacaaaagaatattatttcttcgatcaaaaagaactaaatacattggcaaatgattaagttgcttacatcaagtgtttactattgtacacagGCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCCAACTTTCTCATGTGCAATGAGCAACGTGCTTCCTGCCATGACTTTTGTT
                                                                      | |   |  |   |||| |||    || || || |   |  | |   | |     ||   | |  ||  ||   | |  | | ||  | ||  || | | | |||||  ||  |    |  | ||||| ||||| || || ||||| || |||||||| |||||  | || ||||| || |||||||| |||||||||||  ||||||| |||||||| || || 
---------------------------------------------------------------------gttagtctccttttttttttttccttttctttttcatgcattattgcaaatatgcagac--acatcaatcaagctcttgtgtagatattcaatctgatcaaagcaagt--ttgtttggattgatagGCCTGTGATCGACCAGAACTTTTATTATGCTGGTTTGAAGCTGACTTCCCCGACCTTCTCATGCGCAATGAGCAATATGCTTCCGGCCATGACATTCGTC
















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|209723499|gb|BW669502.1|BW669502
EST:     AGGATAACATTCCCAATTTTCATGCAAATTTTCATCCTAGCTCTACTTGG                         GCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCC
genomic: AGGATAACATTCCCAATTTTCATGCAAATTTTCATCCTAGCTCTACTTGGgttagttcca ... ttgtacacagGCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCC
EST: gi|19453389|gb|BM954799.1|BM954799
EST:     AGGATAACATTCCCAATTTTCATGCAAATTTTCATCCTAGCTCTACTTGG                         GCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCC
genomic: AGGATAACATTCCCAATTTTCATGCAAATTTTCATCCTAGCTCTACTTGGgttagttcca ... ttgtacacagGCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCC
EST: gi|213594520|gb|DB973677.1|DB973677
EST:     AGGATAACATTCCCAATTTTCATGCAAATTTTCATCCTAGCTCTACTTGG                         GCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCC-
genomic: AGGATAACATTCCCAATTTTCATGCAAATTTTCATCCTAGCTCTACTTGGgttagttcca ... ttgtacacagGCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCC
EST: gi|209710126|gb|BW681066.1|BW681066
EST:     AGGATAACATTCCCAATTTTCATGCAAATTTTCATCCTAGCTCTACTTGG                         GCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCC
genomic: AGGATAACATTCCCAATTTTCATGCAAATTTTCATCCTAGCTCTACTTGGgttagttcca ... ttgtacacagGCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatacattggcaaatgattaagttgcttacatcaagtgtttactattgtacacagGCCAGTGATTGATCAAAACTTCTACTATGCTGGGTTGAAATTAACCTCCCCAACTTTCTCATGTGCAATGAGCAACGTGCTTCCTGCCATGACTTTTGTT
                       tgcttac  putative branch site (score: 2)
           aaatgattaa  TA-rich tract