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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attcttttatttatattctcatgctgacacataacaatgctctttggatttatctcgtgtttatgaattaatctttttgataacacttagtttcattcagGTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTCTGTAGCACACTTACTGTTTCACAGGCCCTCAGATCCATCGGTGTTGCTT

Basic information

species Glycine max
transcript GLYMA08G19150.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19150.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G64170.2 (Arabidopsis thaliana), 3'ss of exon 6
-----attcttttatttatattctcatgctgacacataacaatgctctttggatttatctcgtgtttatgaattaatctttttgata-acacttagtttcattcagGTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTCTGTAGCACACTTACTGTTTCACAGGCCCTCAGATCCATCGGTGTTGCTT
     | ||| || |||| |  ||    ||    |      |  |    |  |||| |||    ||       ||||||||   ||    |  | || |||| ||||| ||| ||||| |||||||| |||||||| |||||||| || ||||| ||  |||| || || ||||||||||||||||||||  ||||  | |     
tagtaactctcttctttagaaacttccacttgggctcttgtactcgtccttcatttctcttagattc------taatctttgatatctgtatgtggtctcatccagGTATGCTGGATTCATGGATATCGAAACTGATACAAACCCGATAGATCGATCGATAGCTCATTTGCTGTTTCACAGGCCCTCAGACTCATCTCTTTCATCC

upper sequence: GLYMA08G19150.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0178g00040.t01 (Vitis vinifera), 3'ss of exon 6
attcttttatttatattctcatgctga---cacataacaatgctctttggatttatctcgtgtttatgaattaatctttttgataacacttagtttcattcagGTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTCTGTAGCACACTTACTGTTTCACAGGCCCTCAGATCCATCGGTGTTGCTT
 || | || ||| |  ||   |    |   ||  |  | |   | |||   ||| | |  |||  |||| || |  ||||| ||     ||   || |||||||||  | ||||| ||||||||||||||||| ||||| || |||||||||||| |||||||||||||||||||| |||| ||||| |||||  |  |||  
-ttttattttttttggtcgagtatgaagttcagttttctacagttttttttttttttttttgtaaatgatttga--tttttcattttctttttattgattcagGTGCACTGGATTTATGGATATGGAAACTGATACAAATCCAATTGATCGGTCTATAGCACACTTACTGTTTCACCGGCCTTCAGACCCATCTATAGTGCCC
















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|254341964|gb|GR853101.1|GR853101
EST:     ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAG                         GTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
genomic: ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAGgtattgctta ... tttcattcagGTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
EST: gi|14011720|gb|BG726642.1|BG726642
EST:     ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAG                         GTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
genomic: ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAGgtattgctta ... tttcattcagGTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
EST: gi|19271298|gb|BM887554.1|BM887554
EST:     ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAG                         GTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
genomic: ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAGgtattgctta ... tttcattcagGTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
EST: gi|51335965|gb|CO979831.1|CO979831
EST:     ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAG                         GTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
genomic: ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAGgtattgctta ... tttcattcagGTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
EST: gi|22540857|gb|BU090700.1|BU090700
EST:     ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAG                         GTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
genomic: ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAGgtattgctta ... tttcattcagGTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
EST: gi|27424181|gb|CA935701.1|CA935701
EST:     ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAG                         GTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC
genomic: ATTGGAGATGATGAAACATGCAAAGCAATGATGGCGCAGGATGCAAACAGgtattgctta ... tttcattcagGTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatttatctcgtgtttatgaattaatctttttgataacacttagtttcattcagGTGTGCCGGATTAATGGATATGGAAACTGACACAAACCCCATTGATCGGTCTGTAGCACACTTACTGTTTCACAGGCCCTCAGATCCATCGGTGTTGCTT
                                tgataac  putative branch site (score: 2)
                                             tttcattc  putative PPT
              tttatgaattaatctt  TA-rich tract