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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctagaataatctttctttcttcatcaaaaaagataaggttcagcaacttgttctcagattggctactgggtcaattcaattactaatgccattttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAGCAGGCGGCAGCAACAGCTGGATCTTCTACTTCTGCTTCGGGTACAAAG

Basic information

species Glycine max
transcript GLYMA19G17930.1
intron # 4
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|27425559|gb|CA937079.1|CA937079
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|8284555|gb|BE022123.1|BE022123
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAA                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|20498591|gb|BQ273521.1|BQ273521
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|31458839|gb|CD400867.1|CD400867
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|19269795|gb|BM886051.1|BM886051
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|23729216|gb|BU762696.1|BU762696
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|13252576|gb|BG363479.1|BG363479
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|151401792|gb|EV271605.1|EV271605
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|192312150|gb|FK005649.1|FK005649
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|13240002|gb|BG359311.1|BG359311
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCA
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCA
EST: gi|21602124|gb|BQ612455.1|BQ612455
EST:     AGGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: AGGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|151394370|gb|EV264241.1|EV264241
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|10237666|gb|BE806554.1|BE806554
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|105633785|gb|DW247148.1|DW247148
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGGGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|58024209|gb|CX710950.1|CX710950
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGTTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|120496919|gb|EH225086.1|EH225086
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|192312151|gb|FK005650.1|FK005650
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|5753434|gb|AI960721.1|AI960721
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|14991587|gb|BI317260.1|BI317260
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|58016306|gb|CX703048.1|CX703048
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|8282903|gb|BE020464.1|BE020464
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATNTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
EST: gi|20498257|gb|BQ273187.1|BQ273187
EST:     GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG                         GCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG
genomic: GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAGgtatgttctg ... attttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgttctcagattggctactgggtcaattcaattactaatgccattttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAGCAGGCGGCAGCAACAGCTGGATCTTCTACTTCTGCTTCGGGTACAAAG
                                   tactaat  putative branch site (score: 1)
                                           ccattttttc  CT-rich tract
                           aattcaattactaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctagaataatctttctttcttcatcaaaaaagataaggttcagcaacttgttctcagattggctactgggtcaattcaattactaatgccattttttcagGCTCCTGAGCTGCATGTAGAAATCCATAAGCAGGGATTTGGTCAGCAGCAGCAGGCGGCAGCAACAGCTGGATCTTCTACTTCTGCTTCGGGTACAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - -aaaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taatgcc