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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgattaaacttctactacgtcgtgatttccttcaattgcattgcgatttcattcattcatttattttttctattttgttgtgttgaaattcaaaagCGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGAACCAACTGAAGGATCTCAAAGCAGAACTCGCTCTCCTCCGCGTCGCCAA

Basic information

species Glycine max
transcript GLYMA13G40700.1
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|192319941|gb|FK013311.1|FK013311
EST:     TTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGG                         CGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
genomic: TTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGGgtatgattaa ... aattcaaaagCGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
EST: gi|151409720|gb|EV279528.1|EV279528
EST:     ATTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGG                         CGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
genomic: ATTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGGgtatgattaa ... aattcaaaagCGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
EST: gi|193579453|gb|FK535396.1|FK535396
EST:     ATTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGG                         CGAGAATCAAGGTGTA
genomic: ATTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGGgtatgattaa ... aattcaaaagCGAGAATCAAGGTGTA
EST: gi|213595278|gb|DB964011.1|DB964011
EST:     ATTCTTTTCATCCTCTTCGCAGAGCCTCCGTAGCTTCGCATTAGCAATGG                         CGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAGGCAGAGCTTCTGA
genomic: ATTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGGgtatgattaa ... aattcaaaagCGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
EST: gi|298184397|gb|HO029610.1|HO029610
EST:     ATTCTTTTCATCCTCTTCGCAGAGCCTCCGTAGCTTCGCATTAGCAATGG                         CGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAGGCAGAGCTTCTGA
genomic: ATTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGGgtatgattaa ... aattcaaaagCGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
EST: gi|192319942|gb|FK013312.1|FK013312
EST:     ATTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGG                         CGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
genomic: ATTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGGgtatgattaa ... aattcaaaagCGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
EST: gi|208245156|gb|GE037014.1|GE037014
EST:     ATTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGG                         CGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
genomic: ATTCTTTTCATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGGgtatgattaa ... aattcaaaagCGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
EST: gi|193591140|gb|FK546917.1|FK546917
EST:     TACTTTTACATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGG                         CGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA
genomic: T-CTTTT-CATCCTCTTCGCAGAGCCTCAGTAGCTTCGCATTAGCAATGGgtatgattaa ... aattcaaaagCGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcgatttcattcattcatttattttttctattttgttgtgttgaaattcaaaagCGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGAACCAACTGAAGGATCTCAAAGCAGAACTCGCTCTCCTCCGCGTCGCCAA
     tttcattcattcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgattaaacttctactacgtcgtgatttccttcaattgcattgcgatttcattcattcatttattttttctattttgttgtgttgaaattcaaaagCGAGAATCAAGGTGTACGAGCTGAGGAACAAGACAAAAGCAGAGCTTCTGAACCAACTGAAGGATCTCAAAGCAGAACTCGCTCTCCTCCGCGTCGCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC