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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaactaattctctgacaaatattgcatttgtgtatccttttatttaattgcttgtgtgatgctgatgttgccggtgttctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATGCAAGAAAGCAGTGTGCCTTGTTTGCGTCATAGTGTAGCCTCGTGTAAAT

Basic information

species Glycine max
transcript GLYMA10G01280.1
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|208207665|gb|GE007586.1|GE007586
EST:     CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATG                         AGCTTAAAGGAGTGCCTCCAAGCATGCTGGTGAAACTGATTCCATCTCATG
genomic: CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATGgtaagaacta ... tctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
EST: gi|193510907|gb|FK471325.1|FK471325
EST:     CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAATTTCAGAGCCAATG                         AGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
genomic: CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATGgtaagaacta ... tctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
EST: gi|151393723|gb|EV263598.1|EV263598
EST:     CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATG                         AGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
genomic: CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATGgtaagaacta ... tctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
EST: gi|9983961|gb|BE658069.1|BE658069
EST:     CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATG                         AGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
genomic: CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATGgtaagaacta ... tctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
EST: gi|14991512|gb|BI317185.1|BI317185
EST:     CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATG                         AGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
genomic: CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATGgtaagaacta ... tctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
EST: gi|209698373|gb|BW667613.1|BW667613
EST:     TCAGAGCCAATG                         AGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
genomic: TCAGAGCCAATGgtaagaacta ... tctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
EST: gi|5175344|gb|AI759677.1|AI759677
EST:     CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATG                         AGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
genomic: CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATGgtaagaacta ... tctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
EST: gi|19944926|gb|AB082946.1|AB082946
EST:     CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATG                         AGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG
genomic: CCTACCAAATGGGCGTTACCTTCCCCCACTCTTTAACTTCAGAGCCAATGgtaagaacta ... tctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatccttttatttaattgcttgtgtgatgctgatgttgccggtgttctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATGCAAGAAAGCAGTGTGCCTTGTTTGCGTCATAGTGTAGCCTCGTGTAAAT
                                            ttctgac  putative branch site (score: 2)
     ttttatttaattgctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaactaattctctgacaaatattgcatttgtgtatccttttatttaattgcttgtgtgatgctgatgttgccggtgttctgacacagAGCTTAAAGGAGTGCCTCCAGGCATGCTGGTGAAACTGATTCCATCTCATGCAAGAAAGCAGTGTGCCTTGTTTGCGTCATAGTGTAGCCTCGTGTAAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA