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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttaatcatgtcctgagccacagtctccataaagctttggagtgtggacacaagattatcatttcatatacaatttgattgtttactattttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTCAAATGCTTCAGCAGCTGGGGTTTGTGAGGTACCTGGAGAACCTGCTATT

Basic information

species Glycine max
transcript GLYMA19G36020.1
intron # 1
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|192329260|gb|FK020179.1|FK020179
EST:     CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAG                         GTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
genomic: CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAGgttcgtgtct ... ttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
EST: gi|298177467|gb|HO023600.1|HO023600
EST:     CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAG                         GTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
genomic: CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAGgttcgtgtct ... ttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
EST: gi|192295925|gb|FG992676.1|FG992676
EST:     CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAG                         GTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
genomic: CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAGgttcgtgtct ... ttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
EST: gi|298163896|gb|HO013541.1|HO013541
EST:     CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAG                         GTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
genomic: CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAGgttcgtgtct ... ttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
EST: gi|192321859|gb|FK013671.1|FK013671
EST:     CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAG                         GTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
genomic: CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAGgttcgtgtct ... ttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
EST: gi|151404097|gb|EV273907.1|EV273907
EST:     CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAG                         GTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
genomic: CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAGgttcgtgtct ... ttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
EST: gi|192321371|gb|FK012132.1|FK012132
EST:     CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAG                         GTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
genomic: CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAGgttcgtgtct ... ttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
EST: gi|58025322|gb|CX712063.1|CX712063
EST:     CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTTTCAG                         GTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC
genomic: CCATTCGGATTACCAAAACGACACACCAGGAGGTCGTTTTTCATTCTCAGgttcgtgtct ... ttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggacacaagattatcatttcatatacaatttgattgtttactattttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTCAAATGCTTCAGCAGCTGGGGTTTGTGAGGTACCTGGAGAACCTGCTATT
                           atttgat  putative branch site (score: 5)
                                    tttactattttttct  putative PPT
               atttcatatacaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttaatcatgtcctgagccacagtctccataaagctttggagtgtggacacaagattatcatttcatatacaatttgattgtttactattttttctgtagGTTTTCATAACAAATTTTTGAAATGGAAGATAAAGGAATTAAGCAGGAGTCAAATGCTTCAGCAGCTGGGGTTTGTGAGGTACCTGGAGAACCTGCTATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - catgtcc
- - - - - - - -agccaca
- - - - - - - - - - - - - - - - - - - -gagtgtg