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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtatgttgagtgtgtatattatcttcagtagaaggaatgcaatttaccatgataaaccatactatagtgcataactggaagataaaatgcagtagttttcctccaatgagaagaaaaaatgggtacaatggatgctgttttgttctaattatcatgcactactaatcatttaatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA

Basic information

species Glycine max
transcript GLYMA18G47960.1
intron # 8
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|6726744|gb|AW311098.1|AW311098
EST:     TCTGCTTCTAAATATGCGCTCAATGGTTACTTNCATACCTTGCGTTCAGA                         GCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
genomic: TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAggtatgttga ... aatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
EST: gi|9258099|gb|BE346246.1|BE346246
EST:     TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGA                         GCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
genomic: TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAggtatgttga ... aatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
EST: gi|192305184|gb|FG993950.1|FG993950
EST:     TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGA                         GCTTTGTCAGAAAGGAATCCAGGTAACGGTGGTCTGTCCTGGTCCAATAGA
genomic: TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAggtatgttga ... aatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
EST: gi|209725123|gb|BW663063.1|BW663063
EST:     TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGA                         GCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
genomic: TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAggtatgttga ... aatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
EST: gi|11117943|gb|BF219536.1|BF219536
EST:     TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGA                         GCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
genomic: TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAggtatgttga ... aatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
EST: gi|18848709|gb|BM567821.1|BM567821
EST:     TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGA                         GCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTC
genomic: TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAggtatgttga ... aatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTC
EST: gi|254342710|gb|GR858872.1|GR858872
EST:     TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGA                         GCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
genomic: TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAggtatgttga ... aatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
EST: gi|31306857|gb|CD392060.1|CD392060
EST:     TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGA                         GCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGG
genomic: TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAggtatgttga ... aatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGA
EST: gi|6724680|gb|AW309013.1|AW309013
EST:     TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGA                         GCTTTGTCAGAAAGGA
genomic: TCTGCTTCTAAATATGCGCTCAATGGTTACTTCCATACCTTGCGTTCAGAggtatgttga ... aatggtggcaGCTTTGTCAGAAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatggatgctgttttgttctaattatcatgcactactaatcatttaatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA
           ttttgttctaattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtatgttgagtgtgtatattatcttcagtagaaggaatgcaatttaccatgataaaccatactatagtgcataactggaagataaaatgcagtagttttcctccaatgagaagaaaaaatgggtacaatggatgctgttttgttctaattatcatgcactactaatcatttaatggtggcaGCTTTGTCAGAAAGGAATCCAGGTAACTGTGGTCTGTCCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA