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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagttgcattttgtttcgttatcttgttcttatttatttagttgaagatattttgtaggtatttttttcttcttcttaatactttattaatatttagttgattagctcaaacttttattattttttattaatgtcaataattaaatgtggcatgcagGAAGTTGAAGAGGTGGGGGGGCTAGAAGAGCTGGAGAAAGAGATAAGTAGGAGAGCAAGATCATACAAAATAGCTAGAGAGAAAAGCTAATACAAACAAA

Basic information

species Glycine max
transcript GLYMA09G24530.1
intron # 6
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|193408488|gb|FK370294.1|FK370294
EST:     ATTCGGAAAAATTCGATGGAGTGCCTTATGGGCTGTTTATGGGACCAAAG                         GAAGTTGAAGAGGTGGGGGG-CTAGAAGAGCTGGAGAAAGAGATAAGTAGG
genomic: ATTCGGAAAAATTCGATGGAGTGCCTTATGGGCTGTTTATGGGACCAAAGgtcagttgca ... tggcatgcagGAAGTTGAAGAGGTGGGGGGGCTAGAAGAGCTGGAGAAAGAGATAAGTAGG
EST: gi|14992046|gb|BI317719.1|BI317719
EST:     ATTCGGAAAAATTCGATGGAGTGCCTTATGGGCTGTTTATGGGACCAAAG                         GAAGTTGAAGAGGTNNNNNNNCTAGAAGAGCTGGAGAAAGAGATAAGTAGG
genomic: ATTCGGAAAAATTCGATGGAGTGCCTTATGGGCTGTTTATGGGACCAAAGgtcagttgca ... tggcatgcagGAAGTTGAAGAGGTGGGGGGGCTAGAAGAGCTGGAGAAAGAGATAAGTAGG
EST: gi|208105299|gb|GD902756.1|GD902756
EST:     ATTCGGAAAAATTCGATGGAGTGCCTTATGGGCTGTTTATGGGACCAAAG                         GAAGTTGAAGAG
genomic: ATTCGGAAAAATTCGATGGAGTGCCTTATGGGCTGTTTATGGGACCAAAGgtcagttgca ... tggcatgcagGAAGTTGAAGAG
EST: gi|193336482|gb|FK298970.1|FK298970
EST:     ATTCGGAAAAATTCGATGGAGTGCCTTATGGGCTGTTTATGGGACCAAAG                         GAAGTTGAAGAGGTGGGGGG-CTAGAAGAGCTGGAGAAAGAGATAAGTAGG
genomic: ATTCGGAAAAATTCGATGGAGTGCCTTATGGGCTGTTTATGGGACCAAAGgtcagttgca ... tggcatgcagGAAGTTGAAGAGGTGGGGGGGCTAGAAGAGCTGGAGAAAGAGATAAGTAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctcaaacttttattattttttattaatgtcaataattaaatgtggcatgcagGAAGTTGAAGAGGTGGGGGGGCTAGAAGAGCTGGAGAAAGAGATAAGTAGGAGAGCAAGATCATACAAAATAGCTAGAGAGAAAAGCTAATACAAACAAA
                       tattaat  putative branch site (score: 2)
      aaacttttattatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagttgcattttgtttcgttatcttgttcttatttatttagttgaagatattttgtaggtatttttttcttcttcttaatactttattaatatttagttgattagctcaaacttttattattttttattaatgtcaataattaaatgtggcatgcagGAAGTTGAAGAGGTGGGGGGGCTAGAAGAGCTGGAGAAAGAGATAAGTAGGAGAGCAAGATCATACAAAATAGCTAGAGAGAAAAGCTAATACAAACAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA