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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

atatccttttcaaaattcagtttactaggattccaactattcattcatctgggtggttatttctattattatgtttatcagtttatgtctagtgtctgcttccaaccttgacattttaaacAAAGTAGATAAAGGTGCACATGCTTATTGGTTAGAGAAGGGGATAGTCGAATCTCGTCCTGATCACATTCTGAATCTTATACACTATGAG

Basic information

species Glycine max
transcript GLYMA15G10460.3
intron # 4
splice site 3'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G10460.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G39080.1 (Arabidopsis thaliana), 3'ss of exon 5
atatccttttcaaaattcagtttactaggattccaactattcattcatctgggtggttatttctattattatgtttatcagtttatgtctagtgtctgcttccaaccttgacattttaaacAAAGTAGATAAAGGTGCACATGCTTATTGGTTAGAGAAGGGGATAGTCGAATCTCGTCCTGATCACATTCTGAATCTTATACACTATGAG
||||||||||   | |||    ||||   | |   | |   ||   || ||   |  | ||| | ||  | |||  |  | || |    ||     || |||   |||  || ||||| ||| || |  || |||||||||| |||| |||||    |||| || | | ||  ||||||||||||| ||||| ||||| ||||||||||||
atatcctttt-ggatttcga--tactgaaact--gaatgagcaagtat-tgaaagact-tttttcttggtctgtagaagatttgagcatta-----tgtttct--cctgaactttttatacACAGAAACTAGAGGTGCACATACTTACTGGTTGAGTAAGGAGACAATTGATGCTCGTCCTGATCATATTCTAAATCTCATACACTATGAG

upper sequence: GLYMA15G10460.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0020g01880.t01 (Vitis vinifera), 3'ss of exon 5
atatccttttcaaaattcagtttactaggattccaactattcattcatctgggtggttatttctattattatgtttatcagtttatgtctagtgtctgcttccaaccttgacattttaaacAAAGTAGATAAAGGTGCACATGCTTATTGGTTAGAGAAGGGGATAGTCGAATCTCGTCCTGATCACATTCTGAATCTTATACACTATGAG
                     ||   ||  || || ||||  |||  |  | | |   |||||    |||   |  |  |  | | || |  | | |  |   |||||| ||  ||   |||||| ||||| ||||||||||| |||||||||  |||| ||||  || ||| | || ||||||||||| || ||||||||||||||||||
--------------------gttgtgagatttacatctat--atttgtaagagag---atttcagggatt-catggaggaaatca-gtatcatat-tcttagtaaccttaactattggcacaaagcagatagAGGTGCACATGTTTATTGGTTGAAGAAAGGGACTGTTGAAGCCCGCCCTGATCACATCCTCAATCTTATACACTATGAG
















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|31468376|gb|CD410404.1|CD410404
EST:     AAATAGTGCTGGAGTTTGGTGGTTCTGTTTTAAGACTGTCTGGACTTTAT                         AAAGTAGATAAAGGTGCACATGCTTATTGGTTAGAGAAGGGGATAGTCGAA
genomic: AAATAGTGCTGGAGTTTGGTGGTTCTGTTTTAAGACTGTCTGGACTTTATatatcctttt ... cattttaaacAAAGTAGATAAAGGTGCACATGCTTATTGGTTAGAGAAGGGGATAGTCGAA
EST: gi|9258484|gb|BE346631.1|BE346631
EST:     AAATAGTGCTGGAGTTTGGTGGNTCTGTTTTAAGACTGTCTGGACTNTAT                         AAAGTAGATAAAG
genomic: AAATAGTGCTGGAGTTTGGTGGTTCTGTTTTAAGACTGTCTGGACTTTATatatcctttt ... cattttaaacAAAGTAGATAAAG
EST: gi|31310358|gb|CD395561.1|CD395561
EST:     AAATAGTGCTGGAGTTTGGTGGTTCTGTTTTAAGACTGTCTGGACTTTAT                         AAAGTAGATAAAGGTGCACATGCTTATTGGTTAGAGAAGGGGATAGTCGAA
genomic: AAATAGTGCTGGAGTTTGGTGGTTCTGTTTTAAGACTGTCTGGACTTTATatatcctttt ... cattttaaacAAAGTAGATAAAGGTGCACATGCTTATTGGTTAGAGAAGGGGATAGTCGAA
EST: gi|10231274|gb|BE800171.1|BE800171
EST:     AAATAGTGCTGGAGTTTGGTGGTTCTGTTTTAAGACTGTCTGGACTTTAT                         AAAGTAGATAAAGGTGCACATGCTTATTGGTTAGAGAAGGGGATAGTCGAA
genomic: AAATAGTGCTGGAGTTTGGTGGTTCTGTTTTAAGACTGTCTGGACTTTATatatcctttt ... cattttaaacAAAGTAGATAAAGGTGCACATGCTTATTGGTTAGAGAAGGGGATAGTCGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattatgtttatcagtttatgtctagtgtctgcttccaaccttgacattttaaacAAAGTAGATAAAGGTGCACATGCTTATTGGTTAGAGAAGGGGATAGTCGAATCTCGTCCTGATCACATTCTGAATCTTATACACTATGAG
 aaccttgac  putative branch site 
                                            acattttaaa  TA-rich tract