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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagttttcattcacataacatacacattaacatgcctctctgcctaatatatatatatatatatatatatatgctctcataaatacttttttttattctttttcccatttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGAGGAACAGCGGACAATCTTG

Basic information

species Glycine max
transcript GLYMA14G24450.1
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|192298913|gb|FG987658.1|FG987658
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|192301050|gb|FG990120.1|FG990120
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|151403794|gb|EV273604.1|EV273604
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|24135596|gb|BU926106.1|BU926106
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|23729172|gb|BU762672.1|BU762672
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|20448941|gb|BQ253065.1|BQ253065
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|192299073|gb|FG992849.1|FG992849
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|298186585|gb|HO037218.1|HO037218
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTG
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTG
EST: gi|37995684|gb|CF807273.1|CF807273
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCANAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|16342156|gb|BI967751.1|BI967751
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|31465829|gb|CD407857.1|CD407857
EST:     CATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCGCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGC-CTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|208034450|gb|GD833814.1|GD833814
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|254337576|gb|GR849422.1|GR849422
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|254337575|gb|GR849421.1|GR849421
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|254348952|gb|GR860224.1|GR860224
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|16342161|gb|BI967756.1|BI967756
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|120493319|gb|EH221486.1|EH221486
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|151395288|gb|EV265159.1|EV265159
EST:     GAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: GAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|14126003|gb|BG790441.1|BG790441
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGCGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|58014523|gb|CX701265.1|CX701265
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatatatatgctctcataaatacttttttttattctttttcccatttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGAGGAACAGCGGACAATCTTG
                       tacttttttttattct  CT-rich tract
                  ataaatactttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatagttttcattcacataacatacacattaacatgcctctctgcctaatatatatatatatatatatatatatgctctcataaatacttttttttattctttttcccatttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGAGGAACAGCGGACAATCTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA