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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgctctctcacctactatcatcacatcaatatttgtggacaaactgaaaataatcccacatgagaaattttctttttgaaatgtttgtaatattgtatcatcattgttctcggaactaagatattttgaatattagGATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTCCAACGCTTTGGAACTTCTCAGCAA

Basic information

species Glycine max
transcript GLYMA02G46300.1
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|207749240|gb|GD720070.1|GD720070
EST:     GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTTGCTC                         GATCAACTCCACTA
genomic: GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTCGCTCgtatgttgct ... tgaatattagGATCAACTCCACTA
EST: gi|151398595|gb|EV268466.1|EV268466
EST:     GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTCGCTC                         GATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTC
genomic: GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTCGCTCgtatgttgct ... tgaatattagGATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTC
EST: gi|207734410|gb|GD712430.1|GD712430
EST:     CTGCTGCTTGTCGCTC                         GATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTC
genomic: CTGCTGCTTGTCGCTCgtatgttgct ... tgaatattagGATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTC
EST: gi|208058183|gb|GD859782.1|GD859782
EST:     GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTTGCTC                         GATCAACTCCACTA
genomic: GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTCGCTCgtatgttgct ... tgaatattagGATCAACTCCACTA
EST: gi|207699690|gb|GD678947.1|GD678947
EST:     GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTCGCTC                         GACCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTC
genomic: GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTCGCTCgtatgttgct ... tgaatattagGATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTC
EST: gi|193409684|gb|FK372022.1|FK372022
EST:     GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTCGCTC                         GATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTC
genomic: GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTCGCTCgtatgttgct ... tgaatattagGATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTC
EST: gi|9899477|gb|BE608445.1|BE608445
EST:     GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTCGCTC                         GATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTC
genomic: GCATATGTTGGTAAGCCGAAAGTGAAATCTGCTGCTGCTGCTTGTCGCTCgtatgttgct ... tgaatattagGATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttgtaatattgtatcatcattgttctcggaactaagatattttgaatattagGATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTCCAACGCTTTGGAACTTCTCAGCAA
                                aactaagatattttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttgctctctcacctactatcatcacatcaatatttgtggacaaactgaaaataatcccacatgagaaattttctttttgaaatgtttgtaatattgtatcatcattgttctcggaactaagatattttgaatattagGATCAACTCCACTATTCAAGTTGTGGAACATGAAGAAGCTCTGCGGACTTCCAACGCTTTGGAACTTCTCAGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC