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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattaatagtaaagtttctgataatctcttatgtataaaagcatgagttttatgtttctatagtaaataaccatgatgttgttttaatatgtactgtttgtcttagcattatattctttctgtttcagCAACACTGGGAGAAACTCTAGTTAGACATCGATCAAAACCACGGATATACATTGGATGCATGAAATCTGGGCCTGTCCTATCCCAAAA

Basic information

species Glycine max
transcript GLYMA12G10520.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g06840.2 (Oryza sativa), 3'ss of exon 8
gtattaatagtaaagtttctgataatctcttatgtataaaagcatgagttttatgtttctatagtaaataaccatgatgttgttttaatatgtact--gtttgtcttagcattatattctttctgtttcagCAACACTGGGAGAAACTCTAGTTAGACATCGATCAAAACCACGGATATACATTGGATGCATGAAATCTGGGCCTGTCCTATCCCAAAA
                    | || ||||      || || ||||   ||| ||      || | |  ||   | |   |   |   |||   | |   ||  |  |  ||||    | || || || |||||||||| ||| | | | ||  ||  |||  ||  || ||  |  |||| |||||||||||||||||||| ||||||||| |  | ||
-------------------agctagtctc------atcaatgcata--tttgat----tcattgcatgtagaaagggcatcactgctatagacaattgattctttatgacattggtgttttgcttttgcagCAACACTTGGACAGATTTTATCTAATCATGCATTGAAGCCCAGAGTATATATTGGATGCATGAAATCTGGACCTGTCCTAACTGAGAA

upper sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G007185_T01 (Zea mays), 3'ss of exon 7
gtattaatagtaaagtttctgataatctcttatgtataaaagcatgagttttatgtttctatagtaaataaccatgatgttgttttaatatgtactgtttgtcttagcattatattctttctgtttcagCAACACTGGGAGAAACTCTAGTTAGACATCGATCAAAACCACGGATATACATTGGATGCATGAAATCTGGGCCTGTCCTATCCCAAAA
                   || | || | |    |||       |||   | |  ||   ||| | | |||   |  | || | || |     | | | | ||| | ||| | | | || |  || |||||||||| ||| | |   ||   | ||||   ||||| ||  || ||||||||||||||||||| ||||| |||||||| ||  | ||
------------------gtgttgatttttagcatat-------tgaacctgacatt---atattcagtaattgtctttttatgttcagcaacattatatttct-aacatgacaattttacgtttgcagCAACACTTGGAAATATCTTATCCAAACATATTTCAAAGCCCAGGGTATACATTGGATGCATGAAGTCTGGCCCTGTCCTCTCTGACAA

upper sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G132866_T02 (Zea mays), 3'ss of exon 6
gtattaatagtaaagtttctgataatctcttatgtataaaagcatgagttttatgtttctatagtaaataac-catgatgttgttttaatatgtactgtttgtcttagcattatattctttctgtttcagCAACACTGGGAGAAACTCTAGTTAGACATCGATCAAAACCACGGATATACATTGGATGCATGAAATCTGGGCCTGTCCTATCCCAAAA
                      |||     ||    || |||| |||  | |   | |  |||  ||||| |  |||||    | |    | | |          || |   | | |    |  || ||||||| || ||| | | |||    | ||||  ||  || ||  |  | ||||| ||||||||||||||||| |||||| ||||| ||||
---------------------ttaaaaaactagaagtacaagc-tgatgtgtgaatctgcataaaaaatagcatatgataagctctggcaaagcaac--------taacgccaaagttcggcatttgcagCAACGCTCGGACAGATTCTGTCGAAACATGCATTGAAGCCGAGAGTGTACATCGGATGCATGAAATCTGGACCTGTCTTATCCGAAAA

upper sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 7
gtattaatagtaaagtttctgataatctcttatgtataaaagcatgagttttatgtttctatagtaaataaccatgatgttgttttaatatgtactgtttgtcttagcattatattctttctgtttcagCAACACTGGGAGAAACTCTAGTTAGACATCGATCAAAACCACGGATATACATTGGATGCATGAAATCTGGGCCTGTCCTATCCCAAAA
                      |||  ||| |  |  ||     ||| ||   | | | ||| || | |   ||| |  || |  |   |  ||||  | |  | |   ||  | |        | ||||||| || || |||||||| |||||||| ||   |||||||||| | || ||||| |||||||||||||| |||||||| || |||||
---------------------gtaagttctaaaat-caacgaattgaattggttttctttat-gtcattttgcat-accttatactggca-atactaatgggttcaatgtttcactgaaatgtctgcagCAACTCTTGGGGAAACTCTTGTTAGACACCGGAAAAAACCACGGGTCTATATTGGTTGCATGAAATCTGGCCCTGTCCTCTCTCAAAA

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|13181561|gb|BG352901.1|BG352901
EST:     GGATGCTGATTTCTATGTCAAAGTTGATGATGATGTTCATGTAAATATAG                         CAACACTGGGAGAAACTCTAGTTAGACATCGATCAAAACCACGGATATACA
genomic: GGATGCTGATTTCTATGTCAAAGTTGATGATGATGTTCATGTAAATATAGgtattaatag ... tctgtttcagCAACACTGGGAGAAACTCTAGTTAGACATCGATCAAAACCACGGATATACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatgttgttttaatatgtactgtttgtcttagcattatattctttctgtttcagCAACACTGGGAGAAACTCTAGTTAGACATCGATCAAAACCACGGATATACATTGGATGCATGAAATCTGGGCCTGTCCTATCCCAAAA
        ttttaat  putative branch site (score: 3)
                                      tattctttctgtttc  putative PPT
     ttgttttaatatgta  TA-rich tract