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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTGAGGGACAGATCTCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatccgtatacttaaaatatacctagtttgcttgacctggtttctgtcatcagtctaattgagttgatttttgggttgtccaatctgaaataata...

Basic information

species Glycine max
transcript GLYMA08G17810.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G17810.2 (Glycine max), 5'ss of exon 10
lower sequence: AT1G16470.1 (Arabidopsis thaliana), 5'ss of exon 11
GTTTGAGGGACAGATCTCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatccgtatacttaaaatatacctagtttgcttgacctggtttctgtcatcagtctaattgagttgatttttgggttgtccaatctgaaataata---
 ||||||||| |||||||| | ||||| ||||||||||||| ||| || ||||| |||   ||||||| |   |     |    | ||   | ||  ||||||     || | | ||     | |  |||   ||||||  |    |||     |  | | ||||    
CTTTGAGGGAGAGATCTCAAGCAAAAATATTGAAATTGGCAAAATCGGTGCTGACAAAGTTTTCAGgtaccctttttctttgaaacaaagaatcttttttgctgctgatgatgtttg-----aatagaatgttgttgatactcaa-ttggttttttgggattaatgcag
















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|6719574|gb|AW307221.1|AW307221
EST:     TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|214008378|gb|DB986320.1|DB986320
EST:     CCAGGAAAAAACATTGAAATTGGCATAAATGGAGCTGATAAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|31468638|gb|CD410666.1|CD410666
EST:     TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|19937016|gb|BQ081110.1|BQ081110
EST:     TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|193392002|gb|FK353359.1|FK353359
EST:     GCTGATAAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: GCTGATAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|21257195|gb|BQ454083.1|BQ454083
EST:     TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|21257387|gb|BQ454275.1|BQ454275
EST:     AAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: AAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|6726830|gb|AW311249.1|AW311249
EST:     TAAAAAGTTCAT                         GGT-TCGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: TAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|31462312|gb|CD404340.1|CD404340
EST:     TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|193539952|gb|FK496962.1|FK496962
EST:     TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|14991049|gb|BI316722.1|BI316722
EST:     TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
EST: gi|15200642|gb|BI424453.1|BI424453
EST:     TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAG                         GGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC
genomic: TCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatcc ... gatgttgcagGGTATTGACACCAGCTGAAATTGACGACTATTTGGCTGAAGTAGAATAATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTGAGGGACAGATCTCAGGAAAAAACATTGAAATTGGCATAATTGGAGCTGATAAAAAGTTCAGgtgcatatccgtatacttaaaatatacctagtttgcttgacctggtttctgtcatcagtctaattgagttgatttttgggttgtccaatctgaaataata

- - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT