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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGCAATGGCAATGGCAATGGCACTTGGCAGGCTTTCATCTTCCTTCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgtcctccctcttcaattcaaatcaaatcagaccaaatcctagtgatatttttgaaccttatcgtaaccaggggttttcttgttttaacatag

Basic information

species Glycine max
transcript GLYMA09G33480.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G33480.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv00s0211g00070.t01 (Vitis vinifera), 5'ss of exon 1
ATGGCAATGGCAATGGCAATGGCACTTGGCAGGCTTTCATCTTCCTTCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgtcctccctcttcaattcaaatc------aaatc-------agaccaaatcctagtgatatttttgaa---ccttatcgtaaccaggggttttcttgttttaacatag-----------------------------------------------------------------------------
      ||||| ||||||||||| ||| | ||||||||||| ||| ||||||||||  | |||    |||||||||  || ||  | || |||| ||| ||| | | |||  |   |  ||   ||       ||||        |||   |||  | |    | |||||      || | | |    |    ||||| | || |  |||                                                                               
------ATGGCGATGGCAATGGCGCTTTGGAGGCTTTCATCGTCCGTCAACAAGCCCGTTCGTAGCGTCTTCAATGGCGGTTCCATCTATTACATGgttctttctttctcatttccctgtttggatgctcagaaaatacaggaaaagatggaatagtggaagaacttttggtggttctaaacttgtttatttattttccttttctttcattctttgagcatccggatttctttggaagtgcttgttctgtttctgatgatccatttttcgttttggtttcattttccag

upper sequence: GLYMA09G33480.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv00s0211g00100.t01 (Vitis vinifera), 5'ss of exon 1
ATGGCAATGGCAATGGCAATGGCACTTGGCAGGCTTTCATCTTCCTTCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgtcctccctcttcaattcaaatc------aaatc-------agaccaaatcctagtgatatttttgaa---ccttatcgtaaccaggggttttcttgttttaacatag-----------------------------------------------------------------------------
      ||||| ||||||||||| ||| | ||||||||||| ||| ||||||||||  | |||    |||||||||  || ||  | || |||| ||| ||| | | |||  |   |  ||   ||       ||||        |||   |||  | |    | |||||      || | | |    |    ||||| | || | ||||                                                                               
------ATGGCGATGGCAATGGCGCTTTGGAGGCTTTCATCGTCCGTCAACAAGCCCGTTCGTAGCGTCTTCAATGGCGGTTCCATCTATTACATGgttctttctttctcatttccctgtttggatgctcagaaaatacaggaaaagatggaatagtggaagaacttttggtggttctaaacttgtttatttattttccttttcttacattctttgagcatccggatttctttggaagtgcttgttctgtttctgatgatccatttttcgttttggtttcattttccag
















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|208169672|gb|GD967801.1|GD967801
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGACACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|193605296|gb|FK558136.1|FK558136
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|193422559|gb|FK390172.1|FK390172
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTAGACCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATA
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTT-G-CCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATA
EST: gi|208315715|gb|GE114785.1|GE114785
EST:     TTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|193518136|gb|FK473551.1|FK473551
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|193401889|gb|FK367094.1|FK367094
EST:     CGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: CGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|208248208|gb|GE050762.1|GE050762
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|208102749|gb|GD897490.1|GD897490
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCCGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|193721890|gb|FK659438.1|FK659438
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|208341502|gb|GE137070.1|GE137070
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|208165341|gb|GD964449.1|GD964449
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|208046547|gb|GD849103.1|GD849103
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGTTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|193730758|gb|FK666138.1|FK666138
EST:     TCAACAGGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|207844000|gb|GD815179.1|GD815179
EST:     CAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTG
genomic: CAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAG-TTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTG
EST: gi|208172749|gb|GD969352.1|GD969352
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|208165683|gb|GD964133.1|GD964133
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|193540875|gb|FK496051.1|FK496051
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTTCGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|193636308|gb|FK584009.1|FK584009
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|208178075|gb|GD975732.1|GD975732
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|207833163|gb|GD801382.1|GD801382
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCCGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|208286694|gb|GE085268.1|GE085268
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|208325102|gb|GE124020.1|GE124020
EST:     TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
EST: gi|208138614|gb|GD939746.1|GD939746
EST:     TCAACAAGCCTTTACGTCCTCTCTTCGATGCTGGCTCAGTTTACTACAAG                         TCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG
genomic: TCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgt ... tttaacatagTCCTCTTTGCCTGCTGAAGCTGCGTACGACAATGAGAAAAGCTGTGATACG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGGCAATGGCAATGGCAATGGCACTTGGCAGGCTTTCATCTTCCTTCAACAAGCCTTTACGTCCTCTCTTCAATGCTGGCTCAGTTTACTACAAGgtacttacgtcctccctcttcaattcaaatcaaatcagaccaaatcctagtgatatttttgaaccttatcgtaaccaggggttttcttgttttaacatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG