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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctgtttacacttacacattgttactgcttgtagttgtattgtatgcatctaaactaccttgttttcgattttttgtgactcttcctttgtggcattattctattttctttccatcattcaaatattcagattcttttgtgtgtcttgtattttattttatgttaattttcctcttgctgaaattctatgtgtagGCTGCAGAGAGGCTCATTTCAAGTGAAGGGGAACTCAAAACACAGCTTGAGAATTTTCGAAGGGATCCTGACATATCAT

Basic information

species Glycine max
transcript GLYMA04G39730.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39730.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0031g01540.t01 (Vitis vinifera), 3'ss of exon 4
gtaagctgtttacacttacacattgttactgcttgtagttgtattgtatgcatctaaactaccttgttttcgattttttgtgactcttcctttgtggcattattctattttctttccatcattcaaatattcagattcttttgtgtgtcttgtattttatt-ttatgttaattttcctcttgctgaaattctatgtgtagGCTGCAGAGAGGCTCATTTCAAGTGAAGGGGAACTCAAAACACAGCTTGAGAATTTTCGAAGGGATCCTGACATATCAT
                                                                                                   ||    |  |        ||| ||  | |   ||   |  || || | ||||  ||   ||| ||     ||  |   |||| || |||| || |    ||||||||||||||||||||   |||||||||||||||||||  ||  ||||  |||| || || |||||||| || ||| 
---------------------------------------------------------------------------------------------------ttcagttgctgggaaaaaatctttttattcaccatcctgcttcgtatatctttcatagcattgttgcagaaagatatttcttacttaaat-ctgttctcagGCTGCAGAGAGGCTCATTCTGAGTGAAGGGGAACTCAAAAATCATTTTGAAGATTTCCGTAGAGATCCTGAGATTTCAA
















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|213603446|gb|DB970487.1|DB970487
EST:     GGGTTAATTTTTCACTCGTTGCTGATCTTAAGGATCCTTTGATAACTAAG                         GCTGCAGAGAGGCTCATTTCAAGTGAAGGGGAACTCAAAACACAGCTTGAG
genomic: GGGTTAATTTTTCACTCGTTGCTGATCTTAAGGATCCTTTGATAACTAAGgtaagctgtt ... ctatgtgtagGCTGCAGAGAGGCTCATTTCAAGTGAAGGGGAACTCAAAACACAGCTTGAG
EST: gi|208286267|gb|GE087767.1|GE087767
EST:     TTTTTCACTCGTTGCTGATCTTAAGGATCCTTTGATAACTAAG                         GCTGCAGAGAGGCTCATTTCAAGTGAAGGGGAACTCAAAACACAGCTTGAG
genomic: TTTTTCACTCGTTGCTGATCTTAAGGATCCTTTGATAACTAAGgtaagctgtt ... ctatgtgtagGCTGCAGAGAGGCTCATTTCAAGTGAAGGGGAACTCAAAACACAGCTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtcttgtattttattttatgttaattttcctcttgctgaaattctatgtgtagGCTGCAGAGAGGCTCATTTCAAGTGAAGGGGAACTCAAAACACAGCTTGAGAATTTTCGAAGGGATCCTGACATATCAT
                    tgttaat  putative branch site (score: 3)
     ttgtattttattttat  TA-rich tract