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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagatgcattacttcttttaacattatttagttccaaacggctacttgtttgatgtaaataggttaaattttaataataatgcagGTTAGAACCTGTAATTATTGAACTTGAGCGACAACGAGCACCTGTTGTTGTGATATCTCACCAG

Basic information

species Glycine max
transcript GLYMA02G39390.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G39390.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os03g18310.1 (Oryza sativa), 3'ss of exon 19
---------------gtagatgcattacttctt--ttaacattatttagttc-caaacggctacttgt-ttgatgtaaataggttaaattttaataataatgcagGTTAGAACCTGTAATTATTGAACTTGAGCGACAACGAGCACCTGTTGTTGTGATATCTCACCAG
               ||  |   || || |        | ||||  || ||| |  |  |  |||  | | | || |  |    |  |   |  |     | ||| |||||||||||||||||||| ||||| || || || || || |||||||| ||||||||||||
gttaattcaggctatgtgaaattatcacatgcagacatatattacgtaattcacctattgtaactattatcggtgcactttatctttacagtcttctctgttcagATTAGAACCTGTAATTATTGAGCTTGAACGGCAGCGTGCTCCAGTTGTTGTCATATCTCACCAG

upper sequence: GLYMA02G39390.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 20
gtagatgcattacttcttttaacattatttagttccaaac-ggctacttgtt-----tgatgtaaataggttaaattttaataataatgcagGTTAGAACCTGTAATTATTGAACTTGAGCGACAACGAGCACCTGTTGTTGTGATATCTCACCAG
||        | ||  |   || | |  || ||   ||      || || ||     |||| ||      | || |||    | ||||||||| | || |||||||| ||||| ||||| || ||||||||||||||||| |||||||||||||||
gtttgcaatctgctgttacaaagaatgatttgtcaaaacttaaatattttttccaactgatttattagaataaactttctgcattaatgcagGCTGGAGCCTGTAATCATTGAGCTTGAACGGCAACGAGCACCTGTTGTAGTGATATCTCACCAG
















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|208125843|gb|GD925955.1|GD925955
EST:     CTTAGGTATCGTTATCCTCGTGGAGAGTCTTACTTAGATGTTATTCAAAG                         GTTAGAACCTGTAATTATTGAACTTGAGCGACAACGAGCACCTGTTGTTGT
genomic: CTTAGGTATCGTTATCCTCGTGGAGAGTCTTACTTAGATGTTATTCAAAGgtagatgcat ... aataatgcagGTTAGAACCTGTAATTATTGAACTTGAGCGACAACGAGCACCTGTTGTTGT
EST: gi|17024057|gb|BM095091.1|BM095091
EST:     CTTAGGTATCGTTATCCTCGTGGAGAGTCTTACTTAGATGTTATTCAAAG                         GTTAGAACCTGTAATTATTGAGCTTGAGCGACAACGAGCACCTGTTGTTGT
genomic: CTTAGGTATCGTTATCCTCGTGGAGAGTCTTACTTAGATGTTATTCAAAGgtagatgcat ... aataatgcagGTTAGAACCTGTAATTATTGAACTTGAGCGACAACGAGCACCTGTTGTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttccaaacggctacttgtttgatgtaaataggttaaattttaataataatgcagGTTAGAACCTGTAATTATTGAACTTGAGCGACAACGAGCACCTGTTGTTGTGATATCTCACCAG
                                      ttttaat  putative branch site (score: 3)
               ttgtttgatgtaaata  TA-rich tract