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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactggtttctttctttcaagattggcattgtaggaactttataatttggttgttcatgtctgcagttcaaaataaccatggcatgttatttaatctatccataaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGATATTTCCCTAGAG

Basic information

species Glycine max
transcript GLYMA09G01270.1
intron # 9
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|298195581|gb|HO043972.1|HO043972
EST:     TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAG                         GATCCTTCTCCACTTCCATACTTGACTGAGAAAGAGCCCAAAATCTATGAT
genomic: TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAGgtaactggtt ... taaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
EST: gi|193724130|gb|FK656410.1|FK656410
EST:     TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAG                         GATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
genomic: TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAGgtaactggtt ... taaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
EST: gi|14011019|gb|BG725941.1|BG725941
EST:     TGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAG                         GATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
genomic: TGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAGgtaactggtt ... taaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
EST: gi|6567242|gb|AW234853.1|AW234853
EST:     TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAG                         GATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
genomic: TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAGgtaactggtt ... taaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
EST: gi|7232656|gb|AW568010.1|AW568010
EST:     TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAG                         GATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
genomic: TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAGgtaactggtt ... taaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
EST: gi|7232634|gb|AW567988.1|AW567988
EST:     TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAG                         GATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
genomic: TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAGgtaactggtt ... taaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
EST: gi|298184616|gb|HO029829.1|HO029829
EST:     TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAG                         GATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
genomic: TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAGgtaactggtt ... taaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
EST: gi|10847964|gb|BF071656.1|BF071656
EST:     TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAG                         GATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT
genomic: TTGTGACCTTGGAAGCATTAGAACCTTTTGCCAGTGAAGCCCCAAAACAGgtaactggtt ... taaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctgcagttcaaaataaccatggcatgttatttaatctatccataaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGATATTTCCCTAGAG
                             ttatttaatctatcca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactggtttctttctttcaagattggcattgtaggaactttataatttggttgttcatgtctgcagttcaaaataaccatggcatgttatttaatctatccataaaatgcagGATCCTTCTCCACTTCCATACTTGACTGAGAAAGAACCCAAAATCTATGATATTTCCCTAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC