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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtagttgcaattcaaggatgatgcatttcattcgtatttacactctcctttttgacctttctcatataagcacgtattttgcagCAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGTCCTGATATGTTTAG

Basic information

species Glycine max
transcript GLYMA08G47680.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G47680.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G017835_T01 (Zea mays), 3'ss of exon 6
------------------------------------------------------gttagtagttgcaattcaaggatgatgcatttcattcgtatttacactctcctttttgacctttctcatataagcacgtattttgcagCAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGTCCTGATATGTTTAG
                                                       ||| |  |   |  | |  | || |  |   |||| |   ||    ||  |||     | | | |    | |      | ||  ||||||||||||||||||| ||  | | |||||||||||||   ||||||||||||||||||   |||||
gtaaacaagactgttccaattaacttgcatttttttgtgaaattgtccccctttcttatttctgctagattactggtggtctagagcattaggtcttttgatcagcttaacagcttcttt---gttaattttcacttgccagCAACAAAGTGGAGAGATACTGCTAATGGGCAGCATGTTAGTTATGATCAACGTCCTGATGCCTTTAG

upper sequence: GLYMA08G47680.2 (Glycine max), 3'ss of exon 7
lower sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 7
gttagtagttgcaattcaaggatgatg-catttcattcgt-atttacactc--tcctttttgacctttctcatataagcacgtattttgcagCAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGTCCTGATATGTTTAG
                    | ||||  ||||   || || |||    ||   | ||| || ||||||||||| |    ||  | ||| |||| ||||||||||||||       || || || |||||||||||||||||||||||||||||||||||
--------------------gttgatttcattctctttgttattcttgctaggttcttctttacctttctcatttttcaaccaacttttcagCTACAAAGTGGAGAGAAGGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG

upper sequence: GLYMA08G47680.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 7
----gttagtagtt----gcaattcaaggatgatgcattt----cattcgta--------tttacactct----cctttttgacctttctcat-ataagcacgtatt-ttgcagCAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGTCCTGATATGTTTAG
    |||| |  ||    ||  ||  | | | || | |||          ||        ||||  || |    | ||||  |  ||| | || || |   | || | ||||||||||||||||||| ||||   | | |||||||||||||||||||||||| || ||||||||||||||
gtaagttaattttttagagccttttcaagtttatccttttatgctgcctataaaaaaaggtttatccttttatgctttttatatttttgttatcatcaattcataatgttgcagCAACAAAGTGGAGGGACAGTGCTAATGGGCAGCATGTTGAATATGATCAGCGGCCTGATATGTTTAG

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|207760921|gb|GD731976.1|GD731976
EST:     ACCTTCTACACCACAAGAAAAGAAATTATTTCTTGTAGACCTTGGATTAG                         CAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAAC
genomic: ACCTTCTACACCACAAGAAAAGAAATTGTTTCTTGTAGACCTTGGATTAGgttagtagtt ... tattttgcagCAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcgtatttacactctcctttttgacctttctcatataagcacgtattttgcagCAACAAAGTGGAGAGACACCTCCAGTGGGCAGCATGTTGAATATGATCAACGTCCTGATATGTTTAG
                    ttttgac  putative branch site (score: 3)
     tatttaca  TA-rich tract