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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactattaataatcactgcttttaaatttacctgttatgtttgatacatatagtctgctcattgttcattgaaatattttcagGCTGTGTTAGCATATGAGAAGGCAGAAGAGATCTTGCTGAGGCCTGAGGCTGAGATTGACAGGCCTGAATTGCTTTCTTTAGTTCAGATTCACCATGCAC

Basic information

species Glycine max
transcript GLYMA06G18330.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G18330.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g09890.t01 (Vitis vinifera), 3'ss of exon 3
gta-ctattaataatcactgcttttaaatttacctgttatgtttgatacatatagtc-----tgctcattgttcattgaaatat-tttcagGCTGTGTTAGCATATGAGAAGGCAGAAGAGATCTTGCTGAGGCCTGAGGCTGAGATTGACAGGCCTGAATTGCTTTCTTTAGTTCAGATTCACCATGCAC
||| || || |   |  |  | ||  | |||   |  |||| ||| |    ||   |     | |||||| ||  |||  || | ||| |||| || |  |||||||||||||||| ||||||||||||  |   ||| |  |||||||||||||| || ||||||||  ||||||||||||| |||||||
gtagcttttgaagtttgccccatt--attttggttaatatgcttgctgtccatcaccccatttactcattcttttttggtatttattttagGCAGTTTCTGCATATGAGAAGGCAGCAGAGATCTTGCTCCGCTGTGAAGAAGAGATTGACAGGCCAGAGTTGCTTTCACTAGTTCAGATTCATCATGCAC
















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|5058249|gb|AI736725.1|AI736725
EST:     CTCATTTTATACTCGGCTTGATGTACCAAAGATTAAGCCAACCTCAAAAG                         GCTGTGTTAGCATATGAGAAGGCAGAAGAGATCTTGCTGAGGCCTGAGGCT
genomic: CTCATTTTATACTCGGCTTGATGTACCAAAGATTAAGCCAACCTCAAAAGgtactattaa ... atattttcagGCTGTGTTAGCATATGAGAAGGCAGAAGAGATCTTGCTGAGGCCTGAGGCT
EST: gi|254343234|gb|GR856938.1|GR856938
EST:     CAAAGATTAAGCCAACCTCAAAAG                         GCTGTGTTAGCATATGAGAAGGCAGAAGAGATCTTGCTGAGGCCTGAGGCT
genomic: CAAAGATTAAGCCAACCTCAAAAGgtactattaa ... atattttcagGCTGTGTTAGCATATGAGAAGGCAGAAGAGATCTTGCTGAGGCCTGAGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacctgttatgtttgatacatatagtctgctcattgttcattgaaatattttcagGCTGTGTTAGCATATGAGAAGGCAGAAGAGATCTTGCTGAGGCCTGAGGCTGAGATTGACAGGCCTGAATTGCTTTCTTTAGTTCAGATTCACCATGCAC
          gtttgat  putative branch site (score: 5)
                                              tattttc  putative PPT
                                    ttcattgaaatatttt  TA-rich tract