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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaagagcatcttgctaggttcatttttttttcttcagtgacttgaaattcttagatctatgaggtttatttaaaatggatgatgcaattatgtctcattgttggtttccttcagATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTGATATAAGAAATCATAGCAGTGCCTATCTTACTATTGAAGCTCATAGGGGTTCACTCACAG

Basic information

species Glycine max
transcript GLYMA09G41510.1
intron # 22
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|9819346|gb|BE554859.1|BE554859
EST:     TAGAAAAGGTTGTGGGGATTGGCTTTCAGCCTGGATTAGACCAAGGAAAG                         ATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTGATATAAGAAAT
genomic: TAGAAAAGGTTGTGGGGATTGGCTTTCAGCCTGGATTAGACCAAGGAAAGgtaaaaagag ... tttccttcagATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTGATATAAGAAAT
EST: gi|26269327|gb|CA820390.1|CA820390
EST:     TAGAAAAGGTTGTGGGGATTGGCTTTCAGCCTGGATTAGACCAAGGAAAG                         ATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTGATATAAGAAAT
genomic: TAGAAAAGGTTGTGGGGATTGGCTTTCAGCCTGGATTAGACCAAGGAAAGgtaaaaagag ... tttccttcagATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTGATATAAGAAAT
EST: gi|51341176|gb|CO982493.1|CO982493
EST:     CAGCCTGGATTAGACCAAGGAAAG                         ATTGTTAGCGCNNNNCAGGCTGGGGATATCCAATTTCTTGATATAAGAAAT
genomic: CAGCCTGGATTAGACCAAGGAAAGgtaaaaagag ... tttccttcagATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTGATATAAGAAAT
EST: gi|15201009|gb|BI424645.1|BI424645
EST:     TAGAAAAGGTTGTGGGGATTGGCTTTCAGCCTGGATTAGACCA-GGAAAG                         ATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTG
genomic: TAGAAAAGGTTGTGGGGATTGGCTTTCAGCCTGGATTAGACCAAGGAAAGgtaaaaagag ... tttccttcagATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTG
EST: gi|8282914|gb|BE020475.1|BE020475
EST:     TAGAAAAGGTTGTGGGGATTGGCTTTCAGCCTGGATTAGACCAAGGAAAG                         ATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTGATATAAGAAAT
genomic: TAGAAAAGGTTGTGGGGATTGGCTTTCAGCCTGGATTAGACCAAGGAAAGgtaaaaagag ... tttccttcagATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTGATATAAGAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaggtttatttaaaatggatgatgcaattatgtctcattgttggtttccttcagATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTGATATAAGAAATCATAGCAGTGCCTATCTTACTATTGAAGCTCATAGGGGTTCACTCACAG
                                             tttccttc  CT-rich tract
     tttatttaaaatggat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaaagagcatcttgctaggttcatttttttttcttcagtgacttgaaattcttagatctatgaggtttatttaaaatggatgatgcaattatgtctcattgttggtttccttcagATTGTTAGCGCTTCTCAGGCTGGGGATATCCAATTTCTTGATATAAGAAATCATAGCAGTGCCTATCTTACTATTGAAGCTCATAGGGGTTCACTCACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA