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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagaccagaaaataattgtttcatgctatatgctggaacatatttatgtcagaaattttcattgacatttccattctattttacagGTTATGCGCCTTAGGCTTTTAGGGGACCAAGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG

Basic information

species Glycine max
transcript GLYMA08G18810.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G18810.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G53650.2 (Arabidopsis thaliana), 3'ss of exon 7
gttagaccagaa----aataattg--tttcatgctatatgctggaacatatttatgtcagaaattttcattgacatt----tccattctatttt----------acagGTTATGCGCCTTAGGCTTTTAGGGGACCAAGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG
|| || | ||||    || | |||  |||  |||| |      ||  ||||  |  |   |||    || | |||||    |   |||||| ||          ||||||||  ||| | |||||| | || |||||||||||||| ||||| || |||||||| |||||||| |||
gtcagtctagaatccgaaaacttgctttttctgctctcataaagataatatgaaatttgtaaaacaacaataacattcaacttttttctatcttctctctctgtacagGTTACTCGCTTAAGGCTTCTTGGTGACCAAGTGCATTCTACTCGCATAGCTTTTGTTGAATTTGCCATG

upper sequence: GLYMA08G18810.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 7
------gttagaccagaaaataattgttt-catgctatatgctggaacatatttatgtcagaaattttc-attgacatttccattctattttacagGTTATGCGCCTTAGGCTTTTAGGGGACCAAGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG
       |  | || |||| |    |||| ||    |  | | |  | |  |   | | |  | || || | | ||       ||||  ||| ||||||   ||||| |||||||||||||| || |||||||| || || || |||||||| ||||||||||||
gtcagcatagggcctgaaacttgaagttttcaaatcagttccagagataggtggctttaatgatttctccaataactgacagtttctcattttcagGTTTCTCGCCTGAGGCTTTTAGGGGATCATGTGCATTCGACGCGTATAGCTTTTGTTGAATTTGCAATG
















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|19934604|gb|BQ079634.1|BQ079634
EST:     GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG                         GTTATGCGCCTTAGGCTTTTAGGGGACCAAGTGCATTCAACTCGAATTGCT
genomic: GTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAGgttagaccag ... tattttacagGTTATGCGCCTTAGGCTTTTAGGGGACCAAGTGCATTCAACTCGAATTGCT
EST: gi|9204058|gb|BE330282.1|BE330282
EST:     GTTTCTCAAGCTGAAGTGAAGAANNNNNNNGAATCAGCTTGTGGCGAG                         GTTATGCGCCTTAGGCTTTTAGGGGACCAAGTGCATTCAACTCGAATTGCT
genomic: GTTTCTCAAGCTGAAGTGAAGAATTTTTTTGAATCAGCTTGTGGCGAGgttagaccag ... tattttacagGTTATGCGCCTTAGGCTTTTAGGGGACCAAGTGCATTCAACTCGAATTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctggaacatatttatgtcagaaattttcattgacatttccattctattttacagGTTATGCGCCTTAGGCTTTTAGGGGACCAAGTGCATTCAACTCGAATTGCTTTTGTGGAATTTGCAATG
                            cattgac  putative branch site (score: 3)
                                    tttccattctatttt  CT-rich tract
     aacatatttat  TA-rich tract