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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatataattgaggttgttaaaatcctcaggttttttttttctatttataatgtgttgttgcaagtattgagtgtggttttgctaattcatttcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG

Basic information

species Glycine max
transcript GLYMA13G25460.1
intron # 2
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|209704875|gb|BW661692.1|BW661692
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAAATGAGN
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|19452590|gb|BM954000.1|BM954000
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|298166217|gb|HO009188.1|HO009188
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATGCCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|192321114|gb|FK013560.1|FK013560
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|12774563|gb|BG239490.1|BG239490
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAAAAGGAACTTCAAGCCAAAGAAACT
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACT
EST: gi|213602689|gb|DB968915.1|DB968915
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|209707209|gb|BW656827.1|BW656827
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|14126115|gb|BG790553.1|BG790553
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|209729488|gb|BW651841.1|BW651841
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|192299791|gb|FG990057.1|FG990057
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|19937699|gb|BQ081388.1|BQ081388
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|7591513|gb|AW707244.1|AW707244
EST:     ATAATTATGGCTGTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
EST: gi|209705878|gb|BW675983.1|BW675983
EST:     ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACG                         GATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA
genomic: ATAATTATGGCTTTGGTGCGACAGTTGATATACCTCTTGATTCATCAACGgtatgtatat ... tcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatgtgttgttgcaagtattgagtgtggttttgctaattcatttcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG
                                 tgctaat  putative branch site (score: 2)
                                       ttcatttc  CT-rich tract
                                    taattcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtatataattgaggttgttaaaatcctcaggttttttttttctatttataatgtgttgttgcaagtattgagtgtggttttgctaattcatttcaacattagGATTTGAAAAAGAAGGAGAAGGAACTTCAAGCCAAGGAAACTGAATTGAGAAAAAGGGAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA