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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtactcattgcagttaagtaatatatatatatatataaagggacaatgttgtttaagtaattccatgtctgttctgatgttttcttttgtttacatttattttctgcagAAAGTTAGGTTTTGGAAGAAAGTGTATGTTATATACAGCTTTTTCTTTGTTCGCAAAATCATCGCCCACATGGTCACCTTCTTCTTCTACTGTGTTGTGA

Basic information

species Glycine max
transcript GLYMA11G19490.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19490.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G22740.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagtactcattgcagttaagtaatatatatatatatataaagggacaatgttgtttaagtaattccatgtctgttctgatgttttcttttgtttacatttattttctgcagAAAGTTAGGTTTTGGAAGAAAGTGTATGTTATATACAGCTTTTTCTTTGTTCGCAAAATCATCGCCCACATGGTCACCTTCTTCTTCTACTGTGTTGTGA
                     ||||||   |||   | | |||   ||| | ||  ||   |   |  |   ||  | | || |  || | |      | | || |   ||||||||| || || |||||||||||||| || ||||||||||| ||||||||  | |||||||| || ||   |||||| || |  |||||||| |||||  
---------------------gtaata---ataataacaaaaatttacactttttcttcttttggttaa---cttctttaatctgatcctat-----tactgatctggcgcagAAAGTGAGATTCTGGAAGAAAGTGTACGTGATATACAGCTTCTTCTTTGTGAGGAAAATCATTGCACATTGGGTCACATTTTGTTTCTACTGCGTTGTTC

upper sequence: GLYMA11G19490.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0061g01230.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtactcattgcagttaagtaatatatatatatatataaagggacaatgttgtttaagtaattccatgtctgttctgatgttttcttttgtttacatttattttctgcagAAAGTTAGGTTTTGGAAGAAAGTGTATGTTATATACAGCTTTTTCTTTGTTCGCAAAATCATCGCCCACATGGTCACCTTCTTCTTCTACTGTGTTGTGA
                ||||  | |  | ||||| | | | |  | |  ||||   | |   |||   ||     |  ||    |   ||  ||| |    || | | |||||||||| |||||||||||||| || ||||| || |||||||| ||||| ||  | || ||| | ||||| ||||||||||| | | | |||||||| ||  
----------------gttagttta-gtttatatctttgtgatagaa--atgtaactgag--aatgtaattaagataatgggactaagtt--gttaatcgataatct-tgcagAAAGTGAGGTTTTGGAAGAAGGTATATGTGATCTACAGCTTCTTCTTAGTGAGGAAGATCGTGGCCCATATGGTCACCTTTTGCCTTTACTGTGTGGTAC
















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|7478387|gb|AW666245.1|AW666245
EST:     GTCCTGCTAATTTGTTCCGCAAAATGGTGATGGAGATTGTGAGGAACAAG                         AAAGTTAGGTTTTGGAAGAAAGTGTATGTTATATACAGCTTTTTCTTTGTT
genomic: GTCCTGCTAATTTGTTCCGCAAAATGGTGATGGAGATTGTGAGGAACAAGgtaagtactc ... ttttctgcagAAAGTTAGGTTTTGGAAGAAAGTGTATGTTATATACAGCTTTTTCTTTGTT
EST: gi|207797357|gb|GD769881.1|GD769881
EST:     GTCCTGCTAATTTGTTCCGCAAAATGGTGATGGAGATTGTGAGGAACAAG                         AAAGTTAGGTTT
genomic: GTCCTGCTAATTTGTTCCGCAAAATGGTGATGGAGATTGTGAGGAACAAGgtaagtactc ... ttttctgcagAAAGTTAGGTTT
EST: gi|8284807|gb|BE022366.1|BE022366
EST:     GTCCTGCTAATTTGTTCCGCANAATGGTGATGGAGATTGTGAGGAACAAG                         AAAGTTAGGTTTTGGAAGAAAGTGTATGTTATATAC
genomic: GTCCTGCTAATTTGTTCCGCAAAATGGTGATGGAGATTGTGAGGAACAAGgtaagtactc ... ttttctgcagAAAGTTAGGTTTTGGAAGAAAGTGTATGTTATATAC
EST: gi|6567149|gb|AW234774.1|AW234774
EST:     GTCCTGCTAATTTGTTCCGCAAAATGGTGATGGAGATTGTGAGGAACAAG                         AAAGTTAGGTTTTGG
genomic: GTCCTGCTAATTTGTTCCGCAAAATGGTGATGGAGATTGTGAGGAACAAGgtaagtactc ... ttttctgcagAAAGTTAGGTTTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtaattccatgtctgttctgatgttttcttttgtttacatttattttctgcagAAAGTTAGGTTTTGGAAGAAAGTGTATGTTATATACAGCTTTTTCTTTGTTCGCAAAATCATCGCCCACATGGTCACCTTCTTCTTCTACTGTGTTGTGA
                 ttctgat  putative branch site (score: 3)
                                         tttattttct  putative PPT
                      atgttttcttttgttt  TA-rich tract