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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttatctcttctttaattttccttctttggagcatgctgattgctgcttttgtcaacatagaataagtgctgattttgttttatccttctcctctcctccccccgcccttgcccccacaccagAGTTATCTTCAGAAGAATCTGATTATGAACAAGAGTATGAAGTCTTATCAGCTGGCTCAGCCGATTGGGATGAAAGTGAACAAGGATGGATTTCTGCATC

Basic information

species Glycine max
transcript GLYMA16G21560.1
intron # 5
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|51335222|gb|CO979088.1|CO979088
EST:     TGGCAATAGGATAAATCAACTGTCATTTCCAGAGAAAGAAG                         AGTTATCTTCAGAAGAATCTGATTATGAACAAGAGTATGAAGTCTTATCAG
genomic: TGGCAATAGGATAAATCAACTGTCATTTCCAGAGAAAGAAGgtatcttatc ... cccacaccagAGTTATCTTCAGAAGAATCTGATTATGAACAAGAGTATGAAGTCTTATCAG
EST: gi|9819462|gb|BE554975.1|BE554975
EST:     ATTGAAATCTGGCAATAGGATAAATCAACTGTCATTTCCAGAGAAAGAAG                         AGTTATCTTCAGAAGAATCTGATTATGAACAAGAGTATGAAGTCTTATCAG
genomic: ATTGAAATCTGGCAATAGGATAAATCAACTGTCATTTCCAGAGAAAGAAGgtatcttatc ... cccacaccagAGTTATCTTCAGAAGAATCTGATTATGAACAAGAGTATGAAGTCTTATCAG
EST: gi|18040127|gb|BM308421.1|BM308421
EST:     GATAAATCAACTGTCATTTCCAGAGAAAGAAG                         AGTTATCTTCAGAAGAATCTGATTATGAACAAGAGTATGAAGTCTTATCAG
genomic: GATAAATCAACTGTCATTTCCAGAGAAAGAAGgtatcttatc ... cccacaccagAGTTATCTTCAGAAGAATCTGATTATGAACAAGAGTATGAAGTCTTATCAG
EST: gi|192333177|gb|FK026506.1|FK026506
EST:     ATTGAAATCTGGCAATAGGATAAATCAACTGTCATTTCCAGAGAAAGAAG                         AGTTATCTTCAGAAGAATCTGATTAGGAACAAGAGTATGAAGTCTTATCAG
genomic: ATTGAAATCTGGCAATAGGATAAATCAACTGTCATTTCCAGAGAAAGAAGgtatcttatc ... cccacaccagAGTTATCTTCAGAAGAATCTGATTATGAACAAGAGTATGAAGTCTTATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgattttgttttatccttctcctctcctccccccgcccttgcccccacaccagAGTTATCTTCAGAAGAATCTGATTATGAACAAGAGTATGAAGTCTTATCAGCTGGCTCAGCCGATTGGGATGAAAGTGAACAAGGATGGATTTCTGCATC
 tgctgat  putative branch site (score: 3)
          ttttatccttctcctc  putative PPT
     ttttgttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatcttatctcttctttaattttccttctttggagcatgctgattgctgcttttgtcaacatagaataagtgctgattttgttttatccttctcctctcctccccccgcccttgcccccacaccagAGTTATCTTCAGAAGAATCTGATTATGAACAAGAGTATGAAGTCTTATCAGCTGGCTCAGCCGATTGGGATGAAAGTGAACAAGGATGGATTTCTGCATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA