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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtgtttattcaatcagtaccttatcaattatcactcatggacattttactatgacttttttccttagattttcaaactgatgaatttggtatattatagGCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAAATTAAGGTTACTGGATTTAATGTGTACCACAAAAATCGCCTAATCAAG

Basic information

species Glycine max
transcript GLYMA02G05800.1
intron # 13
splice site 3'
intron type U2

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|14011230|gb|BG726152.1|BG726152
EST:     ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAG                         GCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAA
genomic: ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAGgttagatcca ... tatattatagGCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAA
EST: gi|207718392|gb|GD700398.1|GD700398
EST:     ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAG                         GCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAA
genomic: ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAGgttagatcca ... tatattatagGCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAA
EST: gi|207832648|gb|GD804892.1|GD804892
EST:     ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAG                         GCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAA
genomic: ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAGgttagatcca ... tatattatagGCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAA
EST: gi|208306503|gb|GE110014.1|GE110014
EST:     ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCAACAAATGAG                         GCTATAGCGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAA
genomic: ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAGgttagatcca ... tatattatagGCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAA
EST: gi|193421350|gb|FK388683.1|FK388683
EST:     ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAG                         GCTATAGTGGAGAACAAAAGACAACCATTGG
genomic: ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAGgttagatcca ... tatattatagGCTATAGTGGAGA-CAAA-GACAACCATTGG
EST: gi|17024094|gb|BM095128.1|BM095128
EST:     ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAG                         GCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAA
genomic: ATTCAAAAGTAATTCCATATAAGCCTCAGCTAGCCATGGCATCAAATGAGgttagatcca ... tatattatagGCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttactatgacttttttccttagattttcaaactgatgaatttggtatattatagGCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAAATTAAGGTTACTGGATTTAATGTGTACCACAAAAATCGCCTAATCAAG
                              aactgat  putative branch site (score: 3)
                                      aatttggtatattata  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtgtttattcaatcagtaccttatcaattatcactcatggacattttactatgacttttttccttagattttcaaactgatgaatttggtatattatagGCTATAGTGGAGACAAAGACAACCATTGGATTTATAAAGGAGGCTGCAGAAATTAAGGTTACTGGATTTAATGTGTACCACAAAAATCGCCTAATCAAG

- - - - - - - - gtacctt
- - - - - - - - - - - - - - - -tcactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actgatg