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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttattacaagtttccattcattaatatactcggattaggtgtaaattttttcttggatcaattactttgtttaatgcttcaaaatttgcatgctttcagGTTTTATCACTCTCTTCCGCCAATAACGAAGGCATATGGCACCGTTTGCCTGTTGGCTACCGCAACTTACCATCTTGGATTAGATCATCCAGCTTACATT

Basic information

species Glycine max
transcript GLYMA05G35990.1
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|19346875|gb|BM891763.1|BM891763
EST:     GTTATCTTCCTCAGTAAGCAATGTCTTCTCACGCTGA                         GTTTTATCACTCTCTTCCGCCAATAACGAAGGCATATGGCACCGTTTGCCT
genomic: GTTATCTTCCTCAGTAAGCAATGTCTTCTCCCGCTGAgtaattctct ... atgctttcagGTTTTATCACTCTCTTCCGCCAATAACGAAGGCATATGGCACCGTTTGCCT
EST: gi|207783700|gb|GD758878.1|GD758878
EST:     GTTTTGTTTTT-CGTTATCTTCCTCAGTAAGCAATGTCTTCTCCCGCTGA                         GTTTTATCACTCTCTTCCGCCAATAACGAAG
genomic: GTTTTGTTTTTTCGTTATCTTCCTCAGTAAGCAATGTCTTCTCCCGCTGAgtaattctct ... atgctttcagGTTTTATCACTCTCTTCCGCCAATAACGAAG
EST: gi|298164512|gb|HO014157.1|HO014157
EST:     GTTTTGTTTTTTCGTTATCTTCCTCAGTAAGCAATGTCTTCTCCCGCTGA                         GTTTTATCACTCTCTTCCGCCAATAACGAAGGCATATGGCACCGTTTGCCT
genomic: GTTTTGTTTTTTCGTTATCTTCCTCAGTAAGCAATGTCTTCTCCCGCTGAgtaattctct ... atgctttcagGTTTTATCACTCTCTTCCGCCAATAACGAAGGCATATGGCACCGTTTGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttttcttggatcaattactttgtttaatgcttcaaaatttgcatgctttcagGTTTTATCACTCTCTTCCGCCAATAACGAAGGCATATGGCACCGTTTGCCTGTTGGCTACCGCAACTTACCATCTTGGATTAGATCATCCAGCTTACATT
                        gtttaat  putative branch site (score: 4)
                                              tgctttc  putative PPT
               aattactttgtttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttattacaagtttccattcattaatatactcggattaggtgtaaattttttcttggatcaattactttgtttaatgcttcaaaatttgcatgctttcagGTTTTATCACTCTCTTCCGCCAATAACGAAGGCATATGGCACCGTTTGCCTGTTGGCTACCGCAACTTACCATCTTGGATTAGATCATCCAGCTTACATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - ccattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttca