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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttattaagacaatatcaaagataaactgattattaattaacaagtgcacatatcatttaattacataaaaaaatcagtaatgataatcggcatg...

Basic information

species Glycine max
transcript GLYMA08G42300.1
intron # 3
splice site 5'
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|193424007|gb|FK386328.1|FK386328
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|207694669|gb|GD676528.1|GD676528
EST:     CTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|6665849|gb|AW277299.1|AW277299
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|298164275|gb|HO013920.1|HO013920
EST:     CGAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGGAGACAAATTCGGGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|8285076|gb|BE022635.1|BE022635
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|193646978|gb|FK588873.1|FK588873
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTTACCAGCAAGAGT
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTT-ACCAGCAAGAGT
EST: gi|193359674|gb|FK323758.1|FK323758
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|193362757|gb|FK324405.1|FK324405
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|298181403|gb|HO022842.1|HO022842
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|6666384|gb|AW277843.1|AW277843
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|193662744|gb|FK604008.1|FK604008
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|9985912|gb|BE659918.1|BE659918
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|193632718|gb|FK580566.1|FK580566
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|298186356|gb|HO036989.1|HO036989
EST:     CAAATGCTGCTGCTTCAAACGCAGAACCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|298187885|gb|HO031842.1|HO031842
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|298198572|gb|HO040111.1|HO040111
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|207782861|gb|GD754502.1|GD754502
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|298181551|gb|HO025726.1|HO025726
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|193437618|gb|FK399131.1|FK399131
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|6454914|gb|AW185524.1|AW185524
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTNTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
EST: gi|208212735|gb|GE013208.1|GE013208
EST:     CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAG                         TTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG
genomic: CAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttat ... ccaatatcagTTTTACCAGCAAGAGTCATCCAAATTGAGAAGACAAATTCGAGATATTCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTTAGGGCCACTATTGAGAGGTACAAGAAGGCAAATGCTGCTGCTTCAAACGCAGAATCCGTATCTGAAGCTAACACACAGgtaaatttattaagacaatatcaaagataaactgattattaattaacaagtgcacatatcatttaattacataaaaaaatcagtaatgataatcggcatg

- - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC