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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attggagtgatggttaacagtacaaatgtaaaatgatgtcttttgaagttttgatgcaaggtattttactcctgacttgtgctcattcttgcctttgcagTCCTCCTGCTATTGAGAGGTTGTCAAGTGGTTTGTTCCAAGAAGTTATCATAACTAATACAATTCCAGTGGCAGAACAGAACTATTTCCCTCAATTAACT

Basic information

species Glycine max
transcript GLYMA03G24280.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G24280.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g03540.1 (Oryza sativa), 3'ss of exon 7
----attggagtgatggttaacagtacaaatgtaaaatgatgtcttttgaagttttgatgcaaggtattttactcctgacttgtgctcattcttgcctttgcagTCCTCCTGCTATTGAGAGGTTGTCAAGTGGTTTGTTCCAAGAAGTTATCATAACTAATACAATTCCAGTGGCAGAACAGAACTATTTCCCTCAATTAACT
      || ||  | | | |||  | |  |  | ||||  || ||  ||   | ||  |     ||     | |  | |  | ||  ||||    | ||| ||| || || || ||||| ||||| |||||||||||||| |||||||| ||||| || || || || ||  |    ||  | ||   |||||| ||  | |||
tgactatgcagcaaagat-aacgttcctgacattaaatt-tgactcatgctttgttatttttctgtggaaaatttataatatttgtacattgc--ctttttcagCCCGCCCGCCATTGAAAGGTTATCAAGTGGTTTGTTTCAAGAAGTAATCATCACAAACACTATACCTCTCAAGGAGGACAAGAGTTTCCCGCAGCTGACT

upper sequence: GLYMA03G24280.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 7
-attgga-gtgatggttaacagtacaaatgtaaaatgatgtcttttgaagt-tttgatgcaaggtattttactcctgacttgtgctcattcttgcctttgcagTCCTCCTGCTATTGAGAGGTTGTCAAGTGGTTTGTTCCAAGAAGTTATCATAACTAATACAATTCCAGTGGCAGAACAGAACTATTTCCCTCAATTAACT
 |   |  |||    | || || |    |   ||   |  |   | ||  | |||||||      | |  | | ||    | | |   ||  |   ||||||| |||||||||||  |||||||||| ||||||||||| ||||| || ||||| |||||||| |||||||||   || || |||||||| || ||  | || 
aaccagttgtgcctttcaagaggaggttttggaatctagattcatggatctgtttgatgtt---cactcaaattcttttgtttccgtttttctatatttgcagCCCTCCTGCTATACAGAGGTTGTCGAGTGGTTTGTTTCAAGAGGTGATCATTACTAATACCATTCCAGTGTTGGAGCAAAACTATTTTCCACAGCTGACA
















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|26268807|gb|CA819870.1|CA819870
EST:     CAAGAAGGGGCAAGAGAAGTCTATGCATGCACTACACATGCTGTTTTCAG                         TCCTCCTGCTATTGAGAGGTTGTCAAGTGGTTTGTTCCAAGAAGTTATCAT
genomic: CAAGAAGGGGCAAGAGAAGTCTATGCATGCACTACACATGCTGTTTTCAGgtataagggc ... gcctttgcagTCCTCCTGCTATTGAGAGGTTGTCAAGTGGTTTGTTCCAAGAAGTTATCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagttttgatgcaaggtattttactcctgacttgtgctcattcttgcctttgcagTCCTCCTGCTATTGAGAGGTTGTCAAGTGGTTTGTTCCAAGAAGTTATCATAACTAATACAATTCCAGTGGCAGAACAGAACTATTTCCCTCAATTAACT
                        tcctgac  putative branch site (score: 2)
                                    ctcattcttgccttt  putative PPT
                tattttact  TA-rich tract