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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttcattattcgtggtaatggaataagggtgcatctgagaattgggttttgatgttcatttattttttaaatctccaaacattttgtagGAGAGTAATGTGAAGTGGGCATCTCGCTGGGATTCCTATCTCCTAATGGCTGATGACCAAATTCACTGGTTTTCAATTATTAATTCTTTATTGATTGTAC

Basic information

species Glycine max
transcript GLYMA06G28090.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G28090.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os08g17370.1 (Oryza sativa), 3'ss of exon 5
-----------------------------------gttagtttcattattcgtggtaa-tggaa-----taagggtgcatctg----agaattgggttttgatgttcatttat-----tttttaaatctccaaacattttgtagGAGAGTAATGTGAAGTGGGCATCTCGC----TGGGATTCCTATCTCCTAATGGCTGATGACCAAATTCACTGGTTTTCAATTATTAATTCTTTATTGATTGTAC
                                    |    |  | |  |||  |||  | |||     | || |||||   |    ||   |    |||  |   ||| |||      |||| | | | |   || |||| |||||||| || | |||||||||||||||    |||||| ||||||| || ||| | ||||||||||| ||||||||||| ||| | |||||  |  |||||    
gtgagatatatgtgcacttttttccgatcgttctgctctaatgaaatgatcgcagtagctagaaattgttcagtgtgcactagatggagtgctaatattttgttaccatctatgcgtccttttgactattctgtcaatttgcagGAGAGTGATATCAAGTGGGCATCTCGCTGGCTGGGATACCTATCTACTGATGACGGATGACCAAATCCACTGGTTTTCCATTGTGAATTCCCTCATGATT----

upper sequence: GLYMA06G28090.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0037g00210.t01 (Vitis vinifera), 3'ss of exon 6
-----gttagtttcattattcgtggtaatggaataagggtgcatctgagaat----tgggttttgatgttcatttattttttaaatctccaaacattttgtagGAGAGTAATGTGAAGTGGGCATCTCGCTGGGATTCCTATCTCCTAATGGCTGATGACCAAATTCACTGGTTTTCAATTATTAATTCTTTATTGATTGTAC
        |  | | ||||      |||||   |     |  | ||| |  |      ||   |||| ||| | ||||  |   || | |      | || |||||||| ||||||| ||||| ||||| |||||| |||| || || ||||| ||||| ||||||||||||||||||||| | ||||||||  ||||||| |
gtaagaccacatactttataataaataatgattttgccattaacctgtgtgtactacaggcaatgatattcctgtattgctgtcatgtgct--tggtatgcagGAGAGTGATGTGAAATGGGCCTCTCGATGGGATACCTACCTTCTGATGGCCGATGATCAAATTCACTGGTTTTCAATTGTCAATTCTTTGATGATTGTTC
















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|209698553|gb|BW656441.1|BW656441
EST:     AGGTTGAAGACAAGAAGGAGATAATTTTTACCTATGATGTTGAGTTCCAG                         GAGAGTAATGTGAAGTGGGCATCTCGCTGGGATTCCTATCTCCTAATGGC
genomic: AGGTTGAAGACAAGAAGGAGATAATTTTTACCTATGATGTTGAGTTCCAGgttagtttca ... cattttgtagGAGAGTAATGTGAAGTGGGCATCTCGCTGGGATTCCTATCTCCTAATGGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgagaattgggttttgatgttcatttattttttaaatctccaaacattttgtagGAGAGTAATGTGAAGTGGGCATCTCGCTGGGATTCCTATCTCCTAATGGCTGATGACCAAATTCACTGGTTTTCAATTATTAATTCTTTATTGATTGTAC
            ttttgat  putative branch site (score: 4)
            ttttgatgttcattta  TA-rich tract