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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atattgtctgacaatctttataaaatacactttttaatatattaaagagttgtaacagccaattctgagaatcattttactttttttcttcgaatgtcagAATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTTTTTTTTCCACTTCCCTTTTCCAAAAGATTGACAATGGAACTGGTGTTGTGACAAG

Basic information

species Glycine max
transcript GLYMA10G30930.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G30930.2 (Glycine max), 3'ss of exon 3
lower sequence: AT5G28850.1 (Arabidopsis thaliana), 3'ss of exon 3
atattgtctgacaatctttataaaatacactttttaatatattaaagagttgtaacagccaattctgagaatcattttactttttttcttcgaatgtcagAATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTTTTTTTTCCACTTCCCTTTTCCAAAAGATTGA---CAATGGAACTGGTGTTGTGACAAG
   ||    | || ||        ||    ||| || ||| ||| |   || |||| |   |||     | |  |||  |  ||||   || |   ||||||||||| | | | || |  ||| | |||||||| |||||||| || ||||||||||||||||  ||||| ||   |||    || ||| |||| || ||
--gttagaagtcagtc--------atttgttttctactat-ttata---ttttaactgtttatt----aacttttttctccattttcaatcaatactcagAATTCAAGTTAGTCACCAGAGAAATCTGCAAGCTCCCATCTTTCTTCTCCACTTCCCTTTTCCGGAAGATCGATCTCAACAATACAGGTTTTGTTACTAG

upper sequence: GLYMA10G30930.2 (Glycine max), 3'ss of exon 3
lower sequence: AT5G28900.1 (Arabidopsis thaliana), 3'ss of exon 3
atattgtctgacaatctttataaaatacactttt-taatatattaaaga-gttgtaacagccaattctgagaatcattttactttttttcttcgaatgtcagAATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTTTTTTTTCCACTTCCCTTTTCCAAAAGATTGA---CAATGGAACTGGTGTTGTGACAAG
                 ||| ||   |  | ||| |  | || |||  |  ||  ||| |   |||     | |  |||  |  ||||   || |   ||||||||||| | | | || |  ||| | |||||||| |||||||| || ||||||||||||||||  ||||| ||   |||    || ||| |||| || ||
----------------gttagaagtcagtcatttgttttctactaattatatttgaactgtttatt----aacttttttctccattttcaatcaatactcagAATTCAAGTTAGTCACCAGAGAAATCTGCAAGCTCCCATCTTTCTTCTCCACTTCCCTTTTCCGGAAGATCGATCTCAACAATACAGGTTTTGTTACTAG
















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|7685311|gb|AW755959.1|AW755959
EST:     TAAAATTGATCGGTTATTCCATGATCATATGGATGGCATGCATGTGCATG                         AATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTGTTTTTTCCA
genomic: TAAAATTGATCGGTTATTCCATGATCATATGGATGGCATGCAGGTGCATGgtgagatatc ... cgaatgtcagAATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTTTTTTTTCCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagttgtaacagccaattctgagaatcattttactttttttcttcgaatgtcagAATTCAAATCAATTACTAAGGAAGTTTGCAAGCTGCCATCTTTTTTTTCCACTTCCCTTTTCCAAAAGATTGACAATGGAACTGGTGTTGTGACAAG
    ttgtaac  putative branch site (score: 2)
                          tcattttacttttttt  putative PPT
                        aatcattttacttttt  TA-rich tract