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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacaaacacaaacgaagtgaatgatataatgtatacatttagcagctagaaaataattgccatttgtcagaatttgatgatcttatcatatcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCACAAACTGTCCAATCCCACCTGGGAGGAACCTCACATATGCTATCCAGGTA

Basic information

species Glycine max
transcript GLYMA17G01580.1
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|9204473|gb|BE330697.1|BE330697
EST:     TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATG                         GAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
genomic: TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATGgtacattctt ... tcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
EST: gi|15815174|gb|BI787449.1|BI787449
EST:     TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATG                         GAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
genomic: TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATGgtacattctt ... tcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
EST: gi|16997237|gb|BM086609.1|BM086609
EST:     TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATG                         GAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
genomic: TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATGgtacattctt ... tcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
EST: gi|7588537|gb|AW704260.1|AW704260
EST:     TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATG                         GAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
genomic: TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATGgtacattctt ... tcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
EST: gi|213598785|gb|DB968256.1|DB968256
EST:     TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATG                         GAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
genomic: TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATGgtacattctt ... tcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
EST: gi|213618027|gb|DB963660.1|DB963660
EST:     TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATG                         GAATGGCTTACAGC
genomic: TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATGgtacattctt ... tcttctgcagGAATGGCTTACAGC
EST: gi|23727663|gb|BU761864.1|BU761864
EST:     TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATG                         GAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
genomic: TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATGgtacattctt ... tcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
EST: gi|193347125|gb|FK310211.1|FK310211
EST:     TGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCAATG                         GAATGGCTTAC
genomic: TGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCA-TGgtacattctt ... tcttctgcagGAATGGCTTAC
EST: gi|23727856|gb|BU761964.1|BU761964
EST:     TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATG                         GAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
genomic: TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATGgtacattctt ... tcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
EST: gi|7926178|gb|AW832204.1|AW832204
EST:     TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATG                         GAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC
genomic: TTGATTATCAATGTCTATAACTACCTCAGAGAACCGTTCCTCATTTCATGgtacattctt ... tcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagaaaataattgccatttgtcagaatttgatgatcttatcatatcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCACAAACTGTCCAATCCCACCTGGGAGGAACCTCACATATGCTATCCAGGTA
                          atttgat  putative branch site (score: 5)
                                           tatcttct  putative PPT
     aaataatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tacaaacacaaacgaagtgaatgatataatgtatacatttagcagctagaaaataattgccatttgtcagaatttgatgatcttatcatatcttctgcagGAATGGCTTACAGCATAGGAGGAACTCATGGCAGGATGGAGTGTATGGCACAAACTGTCCAATCCCACCTGGGAGGAACCTCACATATGCTATCCAGGTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- caaacac
- - - - - - - - -tgaatga
- - - - - - - - - - - - - - - - - - - - -gcagcta
- - - - - - - - - - - - - - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgccatt