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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCAGCTGTGAAGGATGTATGTGGGAAGCCCCCAAGTGAGCGCCTTTTCCTTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggcatacagaacagttttagttatgcaaaataacaagaaccagattattttttttgtcattttactcaatctgcttgcctttggaactcatca...

Basic information

species Glycine max
transcript GLYMA08G22580.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G22580.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0002g06730.t01 (Vitis vinifera), 5'ss of exon 4
CTCAGCTGTGAAGGATGTATGTGGGAAGCCCCCAAGTGAGCGCCTTTTCCTTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggcatacagaacagttttagttatgcaaaataacaagaaccagattattttttttgtcattttactca-atctgcttgcctttgg-aactcatca
|||| ||||||| ||||| ||||||||||| |||| ||||||||| |||||||| ||||| ||||  || ||  | |||||||| |||||||| ||| |||| ||| |  || ||  | | |||| |  |   | ||   |      |    || | |   |   ||   | ||| |  |   |   ||  | ||   |  |
CTCATCTGTGAAAGATGTCTGTGGGAAGCCTCCAACTGAGCGCCTCTTCCTTGATAAGTACGGAAAGATATGCTTATGTCTGGACGAAATTGTTTGGAAGgtgagggg--atgcatcaaattttttgcaacctataaaggcttttgtctctctactatcagtactataagaatcacacataactctgttcagcaaagaaata
















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|13311236|gb|BG404869.1|BG404869
EST:     TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAG                         GGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
genomic: TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggc ... tgttttgaagGGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
EST: gi|207826336|gb|GD799447.1|GD799447
EST:     TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAG                         GGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
genomic: TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggc ... tgttttgaagGGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
EST: gi|22933051|gb|BU550190.1|BU550190
EST:     TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAG                         GGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
genomic: TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggc ... tgttttgaagGGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
EST: gi|15815415|gb|BI787690.1|BI787690
EST:     TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAG                         GGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
genomic: TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggc ... tgttttgaagGGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
EST: gi|254314950|gb|GR829943.1|GR829943
EST:     TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAG                         GGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
genomic: TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggc ... tgttttgaagGGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
EST: gi|20813268|gb|BQ297746.1|BQ297746
EST:     TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAG                         GGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
genomic: TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggc ... tgttttgaagGGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
EST: gi|151402216|gb|EV272029.1|EV272029
EST:     TTGTCTGTGTCTGGATGAAATTGTATGGCAG                         GGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
genomic: TTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggc ... tgttttgaagGGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
EST: gi|41146511|gb|CK606722.1|CK606722
EST:     TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAG                         GGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
genomic: TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggc ... tgttttgaagGGATATTTGGAAAATACAGAAAAGGATAGAATCAAAAGACTGATAAGGTTA
EST: gi|208263701|gb|GE062869.1|GE062869
EST:     TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAG                         GGATATTTGGAAAATACAGAAAAGGATAGAATACAAAAAGACTGATAAGGT
genomic: TTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggc ... tgttttgaagGGATATTTGGAAAATACAGAAAAGGATAGAAT-CAAAA-GACTGATAAGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCAGCTGTGAAGGATGTATGTGGGAAGCCCCCAAGTGAGCGCCTTTTCCTTGACAAGTATGGAAGAATTTGTCTGTGTCTGGATGAAATTGTATGGCAGgtaaggaggcatacagaacagttttagttatgcaaaataacaagaaccagattattttttttgtcattttactcaatctgcttgcctttggaactcatca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA