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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttctcttggacttagaataagtcacattcatgttgtcattctccttcatttgcatgaagaacttacttttcattgcaaggctttggtaaaatggtaattaatacatatgttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCCGGGATAATTCTTTTTGGTGGCCTCCTTGCACCTAGC

Basic information

species Glycine max
transcript GLYMA09G36770.3
intron # 3
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|23057217|gb|BU577892.1|BU577892
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|254342696|gb|GR858858.1|GR858858
EST:     TCCTAACTTCCCATCA-TCA-TCCA-TC-TGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: TCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|9987763|gb|BE661871.1|BE661871
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGNC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|193519696|gb|FK477141.1|FK477141
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|298165597|gb|HO011646.1|HO011646
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|19270747|gb|BM887003.1|BM887003
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|15813355|gb|BI785630.1|BI785630
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|13791409|gb|BG654000.1|BG654000
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|298195324|gb|HO039155.1|HO039155
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCATATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|298181545|gb|HO025720.1|HO025720
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|27424921|gb|CA936441.1|CA936441
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|298164288|gb|HO013933.1|HO013933
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACC
EST: gi|5753292|gb|AI960579.1|AI960579
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|254342695|gb|GR858857.1|GR858857
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|193684207|gb|FK623471.1|FK623471
EST:     GAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: GAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|21285677|gb|BQ473548.1|BQ473548
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|15336929|gb|BI497585.1|BI497585
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
EST: gi|151400607|gb|EV270421.1|EV270421
EST:     AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTG                         ACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC
genomic: AGAATGAACTTCCTAACTTCCCATCATTCATTCCATTCTTGCCTCCATTGgtaagttctc ... ttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttttcattgcaaggctttggtaaaatggtaattaatacatatgttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCCGGGATAATTCTTTTTGGTGGCCTCCTTGCACCTAGC
                      taaaatggtaattaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttctcttggacttagaataagtcacattcatgttgtcattctccttcatttgcatgaagaacttacttttcattgcaaggctttggtaaaatggtaattaatacatatgttatttgcagACTTCTGCAAACCTCAAGCAATATTATGCAACCTGTTTTTCTCTTATTGCCGGGATAATTCTTTTTGGTGGCCTCCTTGCACCTAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG