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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttttaattaatataaggttttacgatattgggtcgtggtgggtatgggaaatggggaaactctggtggtctaactgtattatctctgtacttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCTCGTGCTACTCTTCAAAAGCTTTTATCAG

Basic information

species Glycine max
transcript GLYMA09G01270.2
intron # 1
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|16346671|gb|BI972266.1|BI972266
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|18692857|gb|BM521705.1|BM521705
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|213616587|gb|DB967545.1|DB967545
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|254346898|gb|GR856620.1|GR856620
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|213594530|gb|DB957977.1|DB957977
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|151410471|gb|EV280286.1|EV280286
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCGG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|19453154|gb|BM954564.1|BM954564
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|7924174|gb|AW830200.1|AW830200
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|16996748|gb|BM086120.1|BM086120
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|213599984|gb|DB966472.1|DB966472
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCGG                         CCTAATCTAAATAAGTTTGTATCACTTGAAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|15664491|gb|BI701862.1|BI701862
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
EST: gi|192327116|gb|FK015508.1|FK015508
EST:     CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAG                         CCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT
genomic: CTGGTCTCTTCGACGGTCCTCTCCTCAAAAACTCCGATGCTTTTCTCCAGgtaacttcct ... acttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgggaaatggggaaactctggtggtctaactgtattatctctgtacttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCTCGTGCTACTCTTCAAAAGCTTTTATCAG
                        gtctaac  putative branch site (score: 2)
                                            tactttt  putative PPT
                               tgtattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttttaattaatataaggttttacgatattgggtcgtggtgggtatgggaaatggggaaactctggtggtctaactgtattatctctgtacttttacagCCTAATCTAAATAAGTTTGTATCACTTGGAAGACCAGCCTGGAAGGAAGCTCGTGCTACTCTTCAAAAGCTTTTATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - -tggtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaactg