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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccatgcttatcagatttcttgatttatgtaacataaataccgcacctgtaatctgcatcattttacctcactgttatatcttgtctctgatttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAATACTATACTCCACAAATCAGAATAAGCTGCAGCACTCTAGATGGTTTTTG

Basic information

species Glycine max
transcript GLYMA07G05390.1
intron # 8
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|8401989|gb|BE057623.1|BE057623
EST:     AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAAT                         GGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
genomic: AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtct ... tttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
EST: gi|254315135|gb|GR830128.1|GR830128
EST:     AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAAT                         GGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
genomic: AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtct ... tttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
EST: gi|254344222|gb|GR851025.1|GR851025
EST:     AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAAT                         GGATCTT-ATGCGGAGTATATTCTGCATACCTTAAG
genomic: AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtct ... tttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAG
EST: gi|254344223|gb|GR851026.1|GR851026
EST:     AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAAT                         GGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
genomic: AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtct ... tttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
EST: gi|18040990|gb|BM309284.1|BM309284
EST:     AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAAT                         GGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
genomic: AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtct ... tttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
EST: gi|209698574|gb|BW652427.1|BW652427
EST:     AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAAT                         GGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGGAT
genomic: AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtct ... tttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
EST: gi|151399288|gb|EV269159.1|EV269159
EST:     AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAAT                         GGATCTTTATGCGGAGTATATTCTGCATACCTTAAG-CGATAGACAAGAAT
genomic: AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtct ... tttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
EST: gi|5666812|gb|AI930848.1|AI930848
EST:     AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAAT                         GGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
genomic: AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtct ... tttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
EST: gi|21995190|gb|BQ786718.1|BQ786718
EST:     AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAAT                         GGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT
genomic: AATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtct ... tttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtaatctgcatcattttacctcactgttatatcttgtctctgatttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAATACTATACTCCACAAATCAGAATAAGCTGCAGCACTCTAGATGGTTTTTG
           atcatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccatgcttatcagatttcttgatttatgtaacataaataccgcacctgtaatctgcatcattttacctcactgttatatcttgtctctgatttgttgcagGGATCTTTATGCGGAGTATATTCTGCATACCTTAAGGCGATAGACAAGAATACTATACTCCACAAATCAGAATAAGCTGCAGCACTCTAGATGGTTTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG