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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaaatacctagaaaacaatatgcatgtttggctaatttttccctgttgatgtgtttttttactttatgataataacattatttcctggaatgctcacagGTTCACTTAATGAATTTTTCTTCTCTTGGAAATGGTTCTCTCTCTAGATGGGTCATAACACCAAGGCCATATGCTGATTTCTTTTCTAATGCTACTGCAA

Basic information

species Glycine max
transcript GLYMA11G05490.1
intron # 9
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|18734657|gb|BM528311.1|BM528311
EST:     CAGAATTGACTGGACTCATTGCTCATGAATTAGATGTTAATACTTCACAG                         GTTCACTTAATGAATTTTTCTTCTCTTGGAAATGGTTCTCTCTCTAGATGG
genomic: CAGAATTGACTGGACTCATTGCTCATGAATTAGATGTTAATACTTCACAGgttagaaaac ... atgctcacagGTTCACTTAATGAATTTTTCTTCTCTTGGAAATGGTTCTCTCTCTAGATGG
EST: gi|6719923|gb|AW307570.1|AW307570
EST:     CAGAATTGACTGGACTCATTGCTCATGAATTAGATGTTAATACTTCACAG                         GTTCACTTAATGAATTTTTCTTCTCTTGGAA-TGGTTCTCTCTCTAGATGG
genomic: CAGAATTGACTGGACTCATTGCTCATGAATTAGATGTTAATACTTCACAGgttagaaaac ... atgctcacagGTTCACTTAATGAATTTTTCTTCTCTTGGAAATGGTTCTCTCTCTAGATGG
EST: gi|57575769|gb|CX548744.1|CX548744
EST:     CAGAATTGACTGGACTCATTGCTCATGAATTAGATGTTAATACTTCACAG                         GTTCACTTAATGAATTTTTCTTCTCTTGGAAATGGTTCTCTCTCTAGATGG
genomic: CAGAATTGACTGGACTCATTGCTCATGAATTAGATGTTAATACTTCACAGgttagaaaac ... atgctcacagGTTCACTTAATGAATTTTTCTTCTCTTGGAAATGGTTCTCTCTCTAGATGG
EST: gi|7232428|gb|AW567784.1|AW567784
EST:     CAGAATTGACTGGACTCATTGCTCATGAATTATATGTTAATACTTCACAG                         GTTCACTTAATGAAT
genomic: CAGAATTGACTGGACTCATTGCTCATGAATTAGATGTTAATACTTCACAGgttagaaaac ... atgctcacagGTTCACTTAATGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgatgtgtttttttactttatgataataacattatttcctggaatgctcacagGTTCACTTAATGAATTTTTCTTCTCTTGGAAATGGTTCTCTCTCTAGATGGGTCATAACACCAAGGCCATATGCTGATTTCTTTTCTAATGCTACTGCAA
                         taataac  putative branch site (score: 1)
     tgtgtttttttacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caaaatacctagaaaacaatatgcatgtttggctaatttttccctgttgatgtgtttttttactttatgataataacattatttcctggaatgctcacagGTTCACTTAATGAATTTTTCTTCTCTTGGAAATGGTTCTCTCTCTAGATGGGTCATAACACCAAGGCCATATGCTGATTTCTTTTCTAATGCTACTGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
-aaaatacc
- - - - - - aaaacaa
- - - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - -ttccctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcctgga