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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcttacattacactctcttcttcttcttcttcttcttcttcttcttccctctgttcacagtttttaggctcgtttatgtttttcattgatgaatatagggtttacttctatgtgtggtgtttgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGATTCCAAGGAGAAGAATCGCAAATTTGTGGAGACCATCGAACTCCAAATC

Basic information

species Glycine max
transcript GLYMA11G35450.4
intron # 2
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|213590596|gb|DB968132.1|DB968132
EST:     CTCTGCGAGATCTTGAGTCGCCGATTAGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|192305923|gb|FG995795.1|FG995795
EST:     TTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: TTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|58017635|gb|CX704377.1|CX704377
EST:     CGCTTGAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGATTCATGGCCGA
genomic: CGCTTGAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|151398425|gb|EV268296.1|EV268296
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|192305924|gb|FG995796.1|FG995796
EST:     CTCTGCGAGATCTTGAGTCGCCGA-TTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|192307782|gb|FG999261.1|FG999261
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|151400505|gb|EV270319.1|EV270319
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|58014260|gb|CX701002.1|CX701002
EST:     TGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGATTCATGGCCGA
genomic: TGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|308099186|gb|HO761027.1|HO761027
EST:     GCTTGAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: GCTTGAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|24136884|gb|BU927394.1|BU927394
EST:     CGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|151393924|gb|EV263795.1|EV263795
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|9901912|gb|BE610880.1|BE610880
EST:     GCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: GCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|15000729|gb|BI321543.1|BI321543
EST:     GCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: GCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|298185503|gb|HO030716.1|HO030716
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|298190383|gb|HO032504.1|HO032504
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGTGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|17400125|gb|BM176907.1|BM176907
EST:     TGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: TGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|209723425|gb|BW651353.1|BW651353
EST:     CTCTGCGAGATCTTGAGTCGCCGATTAGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|27423697|gb|CA935217.1|CA935217
EST:     GAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: GAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|298163950|gb|HO013595.1|HO013595
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|298188041|gb|HO031998.1|HO031998
EST:     GCTTGAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: GCTTGAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|16996638|gb|BM086010.1|BM086010
EST:     TCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: TCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|298180009|gb|HO025224.1|HO025224
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|298165591|gb|HO011640.1|HO011640
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|192296219|gb|FG989760.1|FG989760
EST:     CTCTGCGAGGTCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGTCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|7284321|gb|AW596915.1|AW596915
EST:     TTGAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: TTGAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|15287229|gb|BI471120.1|BI471120
EST:     AGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: AGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|23725677|gb|BU760801.1|BU760801
EST:     AGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: AGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|12496698|gb|BG047195.1|BG047195
EST:     TTGAGCTCTGGGAGATCGTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAAAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: TTGAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|6746905|gb|AW317361.1|AW317361
EST:     GCTTGAGCTCTGCGATATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: GCTTGAGCTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|209699176|gb|BW664353.1|BW664353
EST:     CTCTGCGAGATCTTGAGTCGCCGATTAGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|213619878|gb|DB971137.1|DB971137
EST:     CTCTGCGAGATCTTGAGTCGCCGATTAGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|6566570|gb|AW234213.1|AW234213
EST:     GAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: GAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|209701422|gb|BW667323.1|BW667323
EST:     CTCTGCGAGATCTTGAGTCGCCGATTAGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|16348580|gb|BI974175.1|BI974175
EST:     TCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: TCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|298177490|gb|HO023623.1|HO023623
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|17023216|gb|BM094250.1|BM094250
EST:     CTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
EST: gi|207801492|gb|GD773870.1|GD773870
EST:     CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAG                         TAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA
genomic: CTCTGCGAGATCTTGAGTCGCCGATTTGAAAAGATGAGgtgcttacat ... tgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttcattgatgaatatagggtttacttctatgtgtggtgtttgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGATTCCAAGGAGAAGAATCGCAAATTTGTGGAGACCATCGAACTCCAAATC
       cattgat  putative branch site (score: 4)
            atgaatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcttacattacactctcttcttcttcttcttcttcttcttcttcttccctctgttcacagtttttaggctcgtttatgtttttcattgatgaatatagggtttacttctatgtgtggtgtttgttgtgtagTAAGCTTCAGAGTGATGCTTTGCGTGAAGCCATCTCAGGAATCATGGCCGATTCCAAGGAGAAGAATCGCAAATTTGTGGAGACCATCGAACTCCAAATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA