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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcttcttaaatttctttcctttttattttttccccttcaaattgcttattgagattttagtttcattctgtgtgcaataattgattggttcagAGAGAAAAGATGGCATATTTGTAGTCAGATCTGATGCAAGGGTAAGCAGCAAGGTTCTGAAGGCCGGAGCTCGCAAGCATGAATTGTTGGTTACTAATGC

Basic information

species Glycine max
transcript GLYMA05G27260.1
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|193430631|gb|FK392387.1|FK392387
EST:     TTCTTCCAACTCCAACAACTTCCTGCTTCCTTCTCGTACATCCCTCTCTG                         AGAGAAAAGATGGCATATTTGTAGTCAGAT
genomic: TTCTTCCAACTCCAACAACTTCCTGCTTCCTTCTCGTACATCCCTCTCTGgtttgcttct ... attggttcagAGAGAAAAGATGGCATATTTGTAGTCAGAT
EST: gi|209715884|gb|BW650897.1|BW650897
EST:     TTCTTCCAACTCCAACAACTTCCTGCTTCCTTCTCGTACATCCCTCTCTG                         AGAGAAAAGAT
genomic: TTCTTCCAACTCCAACAACTTCCTGCTTCCTTCTCGTACATCCCTCTCTGgtttgcttct ... attggttcagAGAGAAAAGAT
EST: gi|120530967|gb|EH259100.1|EH259100
EST:     TTCTTCCAACTCCAACAACTTCCTGCTTCCTTCTCGTACATCCCTCTCTG                         AGAGAAAAGATGGCATATTTGTAGTCAGATCTGATGCAAGGGTAAGCAGCA
genomic: TTCTTCCAACTCCAACAACTTCCTGCTTCCTTCTCGTACATCCCTCTCTGgtttgcttct ... attggttcagAGAGAAAAGATGGCATATTTGTAGTCAGATCTGATGCAAGGGTAAGCAGCA
EST: gi|192321464|gb|FK012856.1|FK012856
EST:     TTCTTCCAACTCCAACAACTTCCTGCTTCCTTCTCGTACATCCCTCTCTG                         AGAGAAAAGATGGCATATTTGTAGTCAGATCTGATGCAAGGGTAAGCAGCA
genomic: TTCTTCCAACTCCAACAACTTCCTGCTTCCTTCTCGTACATCCCTCTCTGgtttgcttct ... attggttcagAGAGAAAAGATGGCATATTTGTAGTCAGATCTGATGCAAGGGTAAGCAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattgcttattgagattttagtttcattctgtgtgcaataattgattggttcagAGAGAAAAGATGGCATATTTGTAGTCAGATCTGATGCAAGGGTAAGCAGCAAGGTTCTGAAGGCCGGAGCTCGCAAGCATGAATTGTTGGTTACTAATGC
                                        aattgat  putative branch site (score: 4)
       ttattgagatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgcttcttaaatttctttcctttttattttttccccttcaaattgcttattgagattttagtttcattctgtgtgcaataattgattggttcagAGAGAAAAGATGGCATATTTGTAGTCAGATCTGATGCAAGGGTAAGCAGCAAGGTTCTGAAGGCCGGAGCTCGCAAGCATGAATTGTTGGTTACTAATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT