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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtatgctattacgtcaatacctgcttttattagtacaccaatctttgctaagaacaatggccttttgatactaaatgtcttgccttttgttcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG

Basic information

species Glycine max
transcript GLYMA12G08720.1
intron # 18
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|57574463|gb|CX547438.1|CX547438
EST:     ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
genomic: ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
EST: gi|207683223|gb|GD665930.1|GD665930
EST:     ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCT
genomic: ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCT
EST: gi|22932418|gb|BU549557.1|BU549557
EST:     ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
genomic: ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
EST: gi|20814308|gb|BQ298786.1|BQ298786
EST:     ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
genomic: ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
EST: gi|13563545|gb|BG551765.1|BG551765
EST:     ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
genomic: ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
EST: gi|207701190|gb|GD683737.1|GD683737
EST:     CAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
genomic: CAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
EST: gi|58016371|gb|CX703113.1|CX703113
EST:     ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
genomic: ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
EST: gi|58021674|gb|CX708415.1|CX708415
EST:     ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
genomic: ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
EST: gi|14991068|gb|BI316741.1|BI316741
EST:     ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCT
genomic: ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCT
EST: gi|58022824|gb|CX709565.1|CX709565
EST:     ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
genomic: ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
EST: gi|58023371|gb|CX710112.1|CX710112
EST:     ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAG                         GATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
genomic: ACATCAGTCATTCATGAAATTACCAATGCCCTGGGAATATATTGTTTCAGgtaaatttcc ... tcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctaagaacaatggccttttgatactaaatgtcttgccttttgttcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG
                       tactaaa  putative branch site (score: 1)
                                tcttgccttttgttc  putative PPT
                 ttttgatactaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgctattacgtcaatacctgcttttattagtacaccaatctttgctaagaacaatggccttttgatactaaatgtcttgccttttgttcaattgtagGATAACTAGGAAGGAAGCTTGAATCCACCCAAGATTTCCTTTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
gtatgct
- - - - - - - - -tacctgc
- - - - - - - - - - - - - - - - - acaccaa
- - - - - - - - - - - - - - - - - - - - - - -tgctaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttttg