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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtatgtttcatgtcctttacctgcagcatatattttagacatgatgaccaagaacttaatttttagcagatttttgattgatcgacttgtatgtttgcagCTTGAGTACTTTGAGACCATATTAAATCCATATTTTACTTCTGATGCAAGAGATTCCTTGAAGTCTTTGCAAGGATTACTTTTGGAAAAAGCCACGGAAA

Basic information

species Glycine max
transcript GLYMA20G31490.2
intron # 19
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|193396090|gb|FK361845.1|FK361845
EST:     CAGATCTTAGTGCAATTGATACAAATGGATTCTGTCAGCTCATGCTTGAG                         TTTGAGTACTTTGAAACCATATTAAATCCATATTTTACTTCTGATGCAAGA
genomic: CAGATCTTAGTGCAATTGATACAAATGGATTCTGTCAGCTCATGCTTGAGgtaagtttta ... atgtttgcagCTTGAGTACTTTGAGACCATATTAAATCCATATTTTACTTCTGATGCAAGA
EST: gi|192303414|gb|FG995666.1|FG995666
EST:     CAGATCTTAGTGCAATTGATACAAATGGATTCTGTCAGCTCATGCTTGAG                         CTTGAGTACTTTGAGACCATATTAAATCCATATTTTACTTCTGATGCAAGA
genomic: CAGATCTTAGTGCAATTGATACAAATGGATTCTGTCAGCTCATGCTTGAGgtaagtttta ... atgtttgcagCTTGAGTACTTTGAGACCATATTAAATCCATATTTTACTTCTGATGCAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaccaagaacttaatttttagcagatttttgattgatcgacttgtatgtttgcagCTTGAGTACTTTGAGACCATATTAAATCCATATTTTACTTCTGATGCAAGAGATTCCTTGAAGTCTTTGCAAGGATTACTTTTGGAAAAAGCCACGGAAA
                              gattgat  putative branch site (score: 4)
     agaacttaattttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtttcatgtcctttacctgcagcatatattttagacatgatgaccaagaacttaatttttagcagatttttgattgatcgacttgtatgtttgcagCTTGAGTACTTTGAGACCATATTAAATCCATATTTTACTTCTGATGCAAGAGATTCCTTGAAGTCTTTGCAAGGATTACTTTTGGAAAAAGCCACGGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - catgtcc
- - - - - - - - - acctgca
- - - - - - - - - - - - -gcatata
- - - - - - - - - - - - - - - - - - - - -tgatgac