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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaacacagtaatccttatagctaaaattatcattaactttttctcattgtatgtctacttaaaacgagaaagggtcttgatgagtcatttatacttttgcatgcagATAAATGTATTTATTGCCCAACAGTTCCTGTTTCAAAGGCAGTGGCAGAAAGTTCACAGCTATGCACAGAGTAAGGGAATCAGCATAATGGGAGACATGC

Basic information

species Glycine max
transcript GLYMA04G39730.1
intron # 5
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 5
lower sequence: Vv07s0031g01540.t01 (Vitis vinifera), 3'ss of exon 6
gtaagaacacagtaatccttatagctaaaattatca-ttaactttttctcattgtatgtctacttaaaacgagaaagggtcttgatgagtcatttatacttttgcatgcagATAAATGTATTTATTGCCCAACAGTTCCTGTTTCAAAGGCAGTGGCAGAAAGTTCACAGCTATGCACAGAGTAAGGGAATCAGCATAATGGGAGACATGC
|||||| |    | |  | ||  || | | ||||   |  |   |||||||| |   || ||  |||  |     | ||| ||       || || |||          |||||||  |||| ||||||||||| ||| | || |||||||| |||||||||||||  | |||||| ||||  || |||||||  ||||||||||||||||
gtaagatctggctgactccta-ggccatatttatgggtccataatttctcatagggagtatatgtaatgctc---aaggtttt-------cacttgtac----------agATAAACATATTCATTGCCCAACAATTCTTATTCCAAAGGCAATGGCAGAAAGTTCGTAACTATGCGCAGATGAAAGGAATCAAGATAATGGGAGACATGC
















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|193658891|gb|FK607308.1|FK607308
EST:     ATCGACATCTTGTAGCTTTAGAAGATATTTACCAACAAAAGCGAGATTTT                         ATAAATGTATTTATTGCCCAACAGTTCCTGTTTCAAAGGCAGTGGCAGAAA
genomic: ATCGACATCTTGTAGCTTTAGAAGATATTTACCAACAAAAGCGAGATTTTgtaagaacac ... ttgcatgcagATAAATGTATTTATTGCCCAACAGTTCCTGTTTCAAAGGCAGTGGCAGAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctacttaaaacgagaaagggtcttgatgagtcatttatacttttgcatgcagATAAATGTATTTATTGCCCAACAGTTCCTGTTTCAAAGGCAGTGGCAGAAAGTTCACAGCTATGCACAGAGTAAGGGAATCAGCATAATGGGAGACATGC
                       tcttgat  putative branch site (score: 4)
                                        tactttt  putative PPT
                                 tcatttatactttt  TA-rich tract