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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcaatgaagagtgatgcatgatttgtgtttatttactttggctgattgtttatgatctgaattgggatttgtctacttctgcagGTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGGTATGGATTTAA

Basic information

species Glycine max
transcript GLYMA08G18110.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G18110.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv19s0027g00760.t01 (Vitis vinifera), 3'ss of exon 1
-gtaagtcaatgaagag--tgatgcatgatttgtgtttatttactttggctgattgtttat----gatctgaattggga---tttgtc-tacttctgcagGTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGGTATGGATTTAA
 ||||||  ||        | ||     |||  ||     ||    ||    ||  | |||    |||||  |||| ||   |||  |    |||||||||| ||||| |||| ||| ||||| ||| | ||||||||||| |||||||| || |||||||||||||| ||||||||||||||||| |            
ggtaagtggattgcattcttaatttgatattcctggcatgttgacctgatatatcctctattcttgatctttattgagaatatttaccacgtttctgcagGTCAAGTTTACAGTTGAGGAGCTTCGTAGGATTATGGACTACAAGCATAACATTCGTAATATGTCTGTTATTGCTCATGTTGATCATG------------

upper sequence: GLYMA08G18110.2 (Glycine max), 3'ss of exon 2
lower sequence: PP1S431_2V6.1 (Physcomitrella patens), 3'ss of exon 1
-------gtaagtcaat-gaagagtgatgcatgatttgtgtttatttactttggctga--ttgtttatgatctga-attg--ggatttgtctacttctgcagGTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGGTATGGATTTAA
        || |||| | | |   || | |  || |  | ||| |  | || || |||  |||  | |   || |   ||  |    ||| | || ||||||||||||||  ||||||| ||||| |||  |||||||||| | ||||| ||||| ||||| |||||||||||||| || ||||| ||||            
gcgaacactacgtcattcggaccttggttccggaatcatattt-tcgaattcggttgaaattgagtgtccgcttatgctgtcgagagtgtgtgct-ctgcagGTGAAGTTTTCAGCTGAGGAGCTCCGTGCTATTATGGACAAGAAGCACAATATTCGTAACATGTCTGTCATTGCCCACGTTGACCACG------------

upper sequence: GLYMA08G18110.2 (Glycine max), 3'ss of exon 2
lower sequence: EFJ28367 (Selaginella moellendorffii), 3'ss of exon 1
gtaagtcaatgaagagtgatgcatgatttgtgtttatttactttggctgattgtttatgatctgaattgggatttgtctact-tctgcagGTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGGTATGGATTTAA
                             |||  |  || || |||   |||  |   |   |    ||  ||     | || | | |||||||| ||||| || |||||||| || || || |||||| | ||||| || ||||| || |||||||| ||||||||||| |||||||            
-----------------------------gtgagtgattcctctgg--aattcgtagcggatt---ctgacatcgtgatgctctttccagGTGAAATTCACGGCAGAAGAGCTGCGCCGGATCATGGACAAGAAGCACAACATCCGGAACATGTCTGTGATTGCTCATGTCGATCACG------------

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|16105491|gb|BI893231.1|BI893231
EST:     CTTTGACTTTTGTTGGAAACTAAGGCCTAATCAAAATG                         GTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAAT
genomic: CTTTGACTTTTGTTGGAAACTAAGGCCTAATCAAAATGgtaagtcaat ... acttctgcagGTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttactttggctgattgtttatgatctgaattgggatttgtctacttctgcagGTGAAGTTCACAGCTGAAGAGCTACGTCGTATTATGGACTATAAGCATAATATCCGTAATATGTCTGTCATTGCTCATGTTGATCACGGTATGGATTTAA
          ggctgat  putative branch site (score: 4)
                                          tctacttct  putative PPT
               attgtttat  TA-rich tract