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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctatattggttgacgaggattatgccccattgcactctgtaaggattggctacgatttatgtagtgtccccttaactaatgtgcccataattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGAAGTGAAACAGCTTCTGTATGGCTGGAG

Basic information

species Glycine max
transcript GLYMA20G33060.1
intron # 4
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|192318792|gb|FK008004.1|FK008004
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|6070532|gb|AW099919.1|AW099919
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|209703125|gb|BW673297.1|BW673297
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTG
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTG
EST: gi|13251787|gb|BG362690.1|BG362690
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|15815853|gb|BI788128.1|BI788128
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|13180911|gb|BG352251.1|BG352251
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAACGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|37996783|gb|CF808372.1|CF808372
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGANAATACTTGTTTACTGNA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|13311729|gb|BG405380.1|BG405380
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGGTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|213590485|gb|DB968077.1|DB968077
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCANAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|213592816|gb|DB957846.1|DB957846
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|213601205|gb|DB964684.1|DB964684
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|192318791|gb|FK008003.1|FK008003
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|15663975|gb|BI701346.1|BI701346
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGA
EST: gi|209729393|gb|BW663668.1|BW663668
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|5820250|gb|AI988456.1|AI988456
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
EST: gi|37995866|gb|CF807455.1|CF807455
EST:     AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAG                         GCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA
genomic: AAGAAGCTAGTTCAAATCTCTTACCATTAAATTTTACCGGGCTATCAAAGgtcagtgtaa ... aattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattggctacgatttatgtagtgtccccttaactaatgtgcccataattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGAAGTGAAACAGCTTCTGTATGGCTGGAG
                              aactaat  putative branch site (score: 2)
                                           ataattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctatattggttgacgaggattatgccccattgcactctgtaaggattggctacgatttatgtagtgtccccttaactaatgtgcccataattatgcagGCTGTGAAGAAGGGTGATACTATTTTTATTGGAAAATACTTGTTTACTGGAAGTGAAACAGCTTCTGTATGGCTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - ccccatt
- - - - - - - - - - - - - - - - - - ctctgta
- - - - - - - - - - - - - - - - - - - - - - - - tggctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcccat