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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttactactactaaagtcaattgtggtatatgctattattttgtgatgtttgggggatttcttcttttttataactgtttttttttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATCCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT

Basic information

species Glycine max
transcript GLYMA11G00210.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G00210.2 (Glycine max), 3'ss of exon 3
lower sequence: AT1G76670.1 (Arabidopsis thaliana), 3'ss of exon 3
acttactactactaaagtcaattgtggtatatgctattattttgtgatgtt-tgggggatttcttcttttttataactgtttttttttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATCCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
 ||     |    ||||   ||| |  | |      || ||   |  | |   | |  |  | ||||  |    || | |   ||||||   | || |||||| ||||| ||||| || ||||| || ||| | ||||| |||||||||||||| |||||||| || ||||||||  |||  ||||| ||   ||| || |
-ctggagtcctggaaagggcatttttctctcgaaacttcttagatactatggcgtgtcaagtgttctgctgacaaattttcactttttcttttggttacagTCTATAGGCTCTCTGCAGAAGAAGTACTCAGTAGGATCCTTTGAATTGCTGAGCAAAACTGCACCAATCCAAGCCATTTCACTTCTCATCTGTGGCCCCT

upper sequence: GLYMA11G00210.2 (Glycine max), 3'ss of exon 3
lower sequence: AT1G21070.1 (Arabidopsis thaliana), 3'ss of exon 3
-acttactactact-aaagtcaattgtggtatatgctattattttgtgatgtttgggggatttcttcttttttataactgtttttttttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATCCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
 |  |   | ||||  ||     || ||| | |  ||    ||     |  | |       |  |  | |||| | |      | | |    || | |||||||||||||||| || || |||||||| || || ||||| || || ||||||||||| || ||||| ||||||||  |||  || || ||  |||||||||
gatgtctgagtacttgaaactccttatggaaaagtcttaccttgaaaaacttctttcttgatgatgatgttttctgataaaagtgtctct--ctggaaacagTCAATAGGTTCACTGCAGAAGAAATACTCGATCGGATCATTCGAGTTGCTGAGTAAGACAGCTCCAATCCAAGCCATTTCACTCCTCATCTTTGGTCCAT

upper sequence: GLYMA11G00210.2 (Glycine max), 3'ss of exon 3
lower sequence: AT5G42420.2 (Arabidopsis thaliana), 3'ss of exon 2
acttactactactaaagtcaattgtggtatatgct-attattttgtgatgtttgggggatttct-tcttttttataactgttttttt-ttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATCCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
 ||| |  | | |   || | |  |  | | || | |||   || ||| | ||| || |||    |||  |  ||   ||||||||  |||    |     ||| |||||||||||| || ||||||||||||||||| || ||||| ||| |||||||||| || || || |||||  |||  |||||| || | ||||| |
-cttgcagcaaat--tgtaagtctttttgtttggtgatttggttttgaagcttgtggaattcaaatctgatcaattggtgttttttccttctgtgttgcttagTTAATAGGTTCTCTACAGAAGAAATATTCAATTGGGTCCTTTGAGTTGTTGAGTAAAACAGCGCCGATTCAAGCTTTTTCGCTTCTTGTTGTCGGTCCTT

upper sequence: GLYMA11G00210.2 (Glycine max), 3'ss of exon 3
lower sequence: AT5G42420.1 (Arabidopsis thaliana), 3'ss of exon 3
acttactactactaaagtcaattgtggtatatgct-attattttgtgatgtttgggggatttct-tcttttttataactgttttttt-ttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATCCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
                || | |  |  | | || | |||   || ||| | ||| || |||    |||  |  ||   ||||||||  |||    |     ||| |||||||||||| || ||||||||||||||||| || ||||| ||| |||||||||| || || || |||||  |||  |||||| || | ||||| |
----------------gtaagtctttttgtttggtgatttggttttgaagcttgtggaattcaaatctgatcaattggtgttttttccttctgtgttgcttagTTAATAGGTTCTCTACAGAAGAAATATTCAATTGGGTCCTTTGAGTTGTTGAGTAAAACAGCGCCGATTCAAGCTTTTTCGCTTCTTGTTGTCGGTCCTT

upper sequence: GLYMA11G00210.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0122g00090.t01 (Vitis vinifera), 3'ss of exon 3
acttactactactaaagtcaattg-tggtatatgctattattttgtgatg--tttgggggatttcttcttttttataactgtttttttttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATCCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
|| |  ||    ||| |    ||| ||||   || | ||  | ||  | |  |||     || || |||     || | ||     |||||    ||  |||||||||||||||| | |||||||| || |||||||||||||| ||||||||||||||||||||||| || ||  |  | |  || ||| | ||||||||||
acatcttatgcttaatggattttgctggttcgtgatgtttgtgtggaaagagttttattcatgtcctctgaca-atgagtggaaaattttctg--tgatacagTCAATAGGTTCTTTGCAAAAGAAGTACTCAATTGGATCTTTCGAATTGCTGAGTAAAACTGCTCCGATTCAGTCCATCTCCCTCCTTGTGCTTGGTCCAT

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|208146755|gb|GD948832.1|GD948832
EST:     TATAGCAGTTTTGTTCAACATCTTTACAGCAAATT                         TCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTG
genomic: TATAGCAGTTTTG-TCAACATCTTTACAGCAAATTgtaagtatta ... cttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTG
EST: gi|193432200|gb|FK395664.1|FK395664
EST:     CATGTGTGCCTGTATAGCAGTTTTGTCAACATCTTTACAGCAAATT                         TCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATC-TTTGAATTGCTG
genomic: CATGTGTGCCTGTATAGCAGTTTTGTCAACATCTTTACAGCAAATTgtaagtatta ... cttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTG
EST: gi|5606254|gb|AI900352.1|AI900352
EST:     GTTTCATGTGTGCCTGTATAGCAGTTTTGTCAACATCTTTACAGCAAATT                         TCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTG
genomic: GTTTCATGTGTGCCTGTATAGCAGTTTTGTCAACATCTTTACAGCAAATTgtaagtatta ... cttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTG
EST: gi|208313377|gb|GE117305.1|GE117305
EST:     TTTCTATGTGTGCCTGTATAGCAGTTTTGTCAACATCTTTACAGCAAATT                         TCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTG
genomic: TTTC-ATGTGTGCCTGTATAGCAGTTTTGTCAACATCTTTACAGCAAATTgtaagtatta ... cttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgtttgggggatttcttcttttttataactgtttttttttcaacttgtaacagTCAATAGGTTCTCTTCAAAAGAAATATTCAATTGGATCTTTTGAATTGCTGAGTAAAACTGCTCCCATCCAAGCGCTTTTTCTTCTTATTCTTGGTCCAT
                        ttataac  putative branch site (score: 2)
                                 tttttttttcaactt  putative PPT
            atttcttcttttttat  TA-rich tract