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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCCCCGCTGCTGAAGGAGTCTTCACTGACTTAGTCAACAAAAGGGACCTCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttatctatgaacaaacaagcaaacacccttatgtcatttcatccaaaagatcacttctttaaaagaaaaattaagatggtttttttttagttta...

Basic information

species Glycine max
transcript GLYMA12G09200.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G09200.2 (Glycine max), 5'ss of exon 1
lower sequence: Vv06s0061g01530.t01 (Vitis vinifera), 5'ss of exon 1
AAGCCCCGCTGCTGAAGGAGTCTTCACTGACTTAGTCAACAAAAGGGACCTCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttatctatgaacaaacaagcaaacacccttatgtcatttcatccaaaagatcacttctttaaaagaaaaattaagatggtttttttttagttta---
|||||| |||||||| || |||||||||||    ||||| || || |  ||  |||| ||||||||||| || |||||||||||||| ||||| ||||||||   ||  |   |      |      |      |  |||   |  ||       | | | | |  ||    | |   | | | || ||  |||   ||    
AAGCCCAGCTGCTGAGGGTGTCTTCACTGATGCTGTCAAGAAGAGAGGGCTGGATTCCAAGTTCAAAATTGATTCTGCTGGCACCATTAATTATCACGAGgtatattggtaatt---tttatgttttatgttgttcttgttcctgaattgtggtaaactcatatggaatgagagaccgatggttgtattggtttccattgagt
















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|33388402|gb|CA851609.1|CA851609
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|26269511|gb|CA820574.1|CA820574
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|192332259|gb|FK023908.1|FK023908
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|298167178|gb|HO010617.1|HO010617
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACTATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAACAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|213603562|gb|DB962708.1|DB962708
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|13252385|gb|BG363288.1|BG363288
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|298194521|gb|HO042993.1|HO042993
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGGG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|192316064|gb|FK008889.1|FK008889
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|208254013|gb|GE055991.1|GE055991
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCACCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAA
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAA
EST: gi|27425137|gb|CA936657.1|CA936657
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|298165521|gb|HO011570.1|HO011570
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAGTGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|17401417|gb|BM178199.1|BM178199
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
EST: gi|9902999|gb|BE611967.1|BE611967
EST:     TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAG                         GGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT
genomic: TCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttat ... attttcgaagGGAAATGAAGCGGATTCGAGAATGAGGGCAGCTTCAAAAAGGCGTGGGATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGCCCCGCTGCTGAAGGAGTCTTCACTGACTTAGTCAACAAAAGGGACCTCAATTCGAAGTTCAAAATCGACTCTGCTGGCACCATCAATTACCACGAGgtgggtttatctatgaacaaacaagcaaacacccttatgtcatttcatccaaaagatcacttctttaaaagaaaaattaagatggtttttttttagttta

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