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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacaaaattcggtcttttattagagaccttaaacatatttaagccaaatttaattgttagtagttcatgaaaattaacaacagtatgtcttttcgtgcagTTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGTTGCATTAGCTGACAACACATGTTTTATGCCTCTTCCTAAAATAAAAGTTCTTGCTAG

Basic information

species Glycine max
transcript GLYMA16G21960.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G21960.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G51520.1 (Arabidopsis thaliana), 3'ss of exon 2
----aacaaaattcggtcttttattagagaccttaaacatatttaagccaaatttaattgttagtagttcatgaaaattaacaacagtatgtcttttcgtgcagTTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGTTGCATTAGCTGACAACACATGTTTTATGCCTCTTCCTAAAATAAAAGTTCTTGCTAG
      || |||    |  ||  |   |    | ||||   ||||||     |||      |  ||  || |  |  ||   |||        | |   | |||| |||||||||||||||||||| ||  | || ||||||||||||||  |   |||   |||| | ||||||||| ||||||| || ||||||||||| ||
gttagtcacaatctccttcttactccaaagtatcaaac---tttaagatgggtttg-----tgata--tcgttgacttttttaac-------ttgtgattacagTCTTTGGTTATGAACCACATTCGGTGCTACCGATTGGAGTTGTTGCTCTTTGTGATCTCACAGGGTTTATGCCTATTCCTAACATTAAAGTTCTTGCAAG

upper sequence: GLYMA16G21960.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0044g01940.t01 (Vitis vinifera), 3'ss of exon 3
-------aacaaaattcggtcttttattagagaccttaaacatatttaagccaaatttaattgttagtagttcatgaaaattaacaacagtatgtcttttcgtgcagTTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGTTGCATTAGCTGACAACACATGTTTTATGCCTCTTCCTAAAATAAAAGTTCTTGCTAG
        | | |  |  | | |   ||||  ||      | | | | ||   | ||    | || ||  | ||| |  | | | || ||| | |  || | |||||| ||||||||||| |||||||||||| |||||||||| ||||||||| | ||||||   ||| ||||  |||||||  | ||||| ||||| ||||| ||
ggtttcttagacagctttgacctcatttaggaact---ggcttctattagtttattt---ctctttgttatgcataagtaatgataatagtgtatgctt-cttgcagTATTTGGTTATGAGCCACATTCAGTTCTGCCAATTGGTGTTGTTGCACTTGCTGACCTTACAGGTTTCCTGCCTCTCTCAAAAATTAAAGTCCTTGCAAG
















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|11274206|gb|BF324574.1|BF324574
EST:     ACGCTTCATGTGGAGGATATGAAGGCTTTTCATCCCAGTCGTGCTTATG                         TTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGTTGCATTAG
genomic: ACGCTTCATGTGGAGGATATGAAGGCTTTTCATCCCAGTCGTGCTTATGgtgtgtccca ... tttcgtgcagTTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGTTGCATTAG
EST: gi|20815058|gb|BQ299536.1|BQ299536
EST:     CACGCTTCATGTGGAGGATATGAAGGCTTTTCATCCCAGTCGTGCTTATG                         TTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGT
genomic: CACGCTTCATGTGGAGGATATGAAGGCTTTTCATCCCAGTCGTGCTTATGgtgtgtccca ... tttcgtgcagTTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGT
EST: gi|27446115|gb|CA953238.1|CA953238
EST:     CACGCTTCATGTGGAGGATATGAAGGCTTTTCATCCCAGTCGTGCTTATG                         TTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGTTGCATTAG
genomic: CACGCTTCATGTGGAGGATATGAAGGCTTTTCATCCCAGTCGTGCTTATGgtgtgtccca ... tttcgtgcagTTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGTTGCATTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatttaattgttagtagttcatgaaaattaacaacagtatgtcttttcgtgcagTTTTTGGTTATGAACCACATTCAGTTTTGCCAATTGGAGTTGTTGCATTAGCTGACAACACATGTTTTATGCCTCTTCCTAAAATAAAAGTTCTTGCTAG
                          aattaac  putative branch site (score: 2)
                                        tgtcttttc  putative PPT
                  ttcatgaaaattaa  TA-rich tract