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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtctaatttttaacagtttacagcattgacttttataatgaattatgttgttttcatgttttgcattcatgaccttcacctctgtatattgacaactggtggtgtctctgaagTATCTAGATGGAACAACAGATATTACACGAACAGTTCATTTTGGTAAACCTTCGACTCACGAAAAAGCGTGTTATACAGCA

Basic information

species Glycine max
transcript GLYMA11G06900.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G06900.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G36760.1 (Arabidopsis thaliana), 3'ss of exon 9
gtctgtctaatttttaacagtttacagcattgacttt-tataatgaa-ttatgttgttttcatgttttgcattcatgaccttcacctctgtatattgacaactggtggtgtctctgaagTATCTAGATGGAACAACAGATATTACACGAACAGTTCATTTTGGTAAACCTTCGACTCACGAAAAAGCGTGTTATACAGCA
             | || |  | |||  ||||| | | ||  || |  |||  |||| || ||        |   ||  ||  |   |  | |  |      ||    | |||   |||||||| ||||||||||| ||||| || ||||| ||||| ||||| ||||||||  |||| ||||| |  || ||||| || 
------------gtaaata--tcacatgattgagtgtatactataagcttaccttgtatttat---caaagtctttgctctataatacaatttcgttgttgttgtc--tttctgcaaagTATCTCGATGGAACAACTGATATAACCCGAACGGTTCACTTTGGAAAACCTTCAGCTCATGAAAAGGAATGCTATACTGCG

upper sequence: GLYMA11G06900.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv04s0023g01300.t01 (Vitis vinifera), 3'ss of exon 10
-----------------gtctgtctaatttttaacagtttacagcattgacttttataatgaatt-atgttgttttcatgttttgcattcatgaccttcacctctgtatattgacaactggtggtgtctctgaagTATCTAGATGGAACAACAGATATTACACGAACAGTTCATTTTGGTAAACCTTCGACTCACGAAAAAGCGTGTTATACAGCA
                    ||| |    | || |  || ||   |        || ||| | |  || || | |      ||||  || ||||  ||  |   | | || |||  |    |||||||| ||||||||| |||||||||||| ||||| || ||||| ||||||||||| ||||||||  | || || ||||| || ||||| || 
gtttgccaactatcttgaattgtttgggatatagccattaaccaaagaaggcaatacaataagtccattttttgtattaactttgtgtttatgatatt-gctattctttactgatgat--atggtgtctttgaagTATCAAGATGGAACAACTGATATAACTCGAACTGTTCATTTTGGAAAACCTTCATCACATGAGAAAGCATGCTATACTGCG
















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|208177071|gb|GD974364.1|GD974364
EST:     ACAAAATTTANCTTTTTGATTCTGGAGCCCAG                         TATCTAGATGGAACAACAGATATTACACGAACAGTTCATTTTGGTAAACCT
genomic: ACAAAATTTATCTTTTTGATTCTGGAGCCCAGgtctgtctaa ... gtctctgaagTATCTAGATGGAACAACAGATATTACACGAACAGTTCATTTTGGTAAACCT
EST: gi|208301822|gb|GE099388.1|GE099388
EST:     GTGCTGAACTTGATCCAGACAAAATTTATCTTTTTGATTCTGGAGCCCAG                         TATCTAGATGGAACAACAGATATTACACGAACAG
genomic: GTGCTGAACTTGATCCAGACAAAATTTATCTTTTTGATTCTGGAGCCCAGgtctgtctaa ... gtctctgaagTATCTAGATGGAACAACAGATATTACACGAACAG
EST: gi|207832058|gb|GD805108.1|GD805108
EST:     TTCTGGAGCCCAG                         TATCTAGATGGAACAACAGATATTACACGAACAGTTCATTTTGGTAAACCT
genomic: TTCTGGAGCCCAGgtctgtctaa ... gtctctgaagTATCTAGATGGAACAACAGATATTACACGAACAGTTCATTTTGGTAAACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgcattcatgaccttcacctctgtatattgacaactggtggtgtctctgaagTATCTAGATGGAACAACAGATATTACACGAACAGTTCATTTTGGTAAACCTTCGACTCACGAAAAAGCGTGTTATACAGCA
                            tattgac  putative branch site (score: 2)
                                            tgtctct  putative PPT
                        tgtatatt  TA-rich tract