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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgttcattccatcatggttttatggtatgtttccttttgggggatcaattgccaattcagttaagctttttgctgttgatgtgattagagtggggttgtgggggctaaaaatgtatattttggggggcttgtgttaatatactattctttttggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAAAATCAAAACGTCATCCAATATGGAACGAGTAGAAGTTTAGTCCCTGTTT

Basic information

species Glycine max
transcript GLYMA08G46090.2
intron # 12
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|208293143|gb|GE096393.1|GE096393
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|9259263|gb|BE347471.1|BE347471
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|209724188|gb|BW659722.1|BW659722
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|207711696|gb|GD694172.1|GD694172
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|208330473|gb|GE131298.1|GE131298
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|9984306|gb|BE658414.1|BE658414
EST:     GACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: GACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|193446064|gb|FK412245.1|FK412245
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|208056396|gb|GD853375.1|GD853375
EST:     TATGGAAATATGTATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TATGGAAATATG-ATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|208051348|gb|GD847187.1|GD847187
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|15813682|gb|BI785957.1|BI785957
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|207781911|gb|GD750962.1|GD750962
EST:     ATGGAAATATGATCAACAAGATGAC-AAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: ATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|14195902|gb|BE819899.2|BE819899
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|58019857|gb|CX706599.1|CX706599
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|213610535|gb|DB978562.1|DB978562
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|193333493|gb|FK300447.1|FK300447
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|207806520|gb|GD777023.1|GD777023
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
EST: gi|208328160|gb|GE129598.1|GE129598
EST:     TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAAT                         AAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA
genomic: TTATGGAAATATGATCAACAAGATGACAAAGATTGGTTCCTGATAGCAATgtgagtgttc ... tggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaatgtatattttggggggcttgtgttaatatactattctttttggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAAAATCAAAACGTCATCCAATATGGAACGAGTAGAAGTTTAGTCCCTGTTT
                         tgttaat  putative branch site (score: 3)
                                   ctattcttttt  putative PPT
                         tgttaatatactattc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtgttcattccatcatggttttatggtatgtttccttttgggggatcaattgccaattcagttaagctttttgctgttgatgtgattagagtggggttgtgggggctaaaaatgtatattttggggggcttgtgttaatatactattctttttggcatgcagAAACCAGCTACCAAGTACCAACGGTATTGAATCCGTGGGTACTGGCAACAAAATCAAAACGTCATCCAATATGGAACGAGTAGAAGTTTAGTCCCTGTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT