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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactggcgtgtgacatcactttttagcctattagtcttctttcctcataccatgagttttagtatctattttattttttaaatgatctgggtttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACCAATTGGCATTTAGTTTCCTGATGTTCAG

Basic information

species Glycine max
transcript GLYMA09G35980.1
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|193475007|gb|FK441648.1|FK441648
EST:     ATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: ATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|15815311|gb|BI787586.1|BI787586
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACC
EST: gi|24206180|gb|BU965433.1|BU965433
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|10237801|gb|BE806689.1|BE806689
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|208211468|gb|GE009547.1|GE009547
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGAGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|14991995|gb|BI317668.1|BI317668
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|208284063|gb|GE082021.1|GE082021
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|193648469|gb|FK596166.1|FK596166
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGC
EST: gi|15285708|gb|BI469599.1|BI469599
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|19348704|gb|BM893236.1|BM893236
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|207769688|gb|GD741736.1|GD741736
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|193329329|gb|FK294425.1|FK294425
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|193519758|gb|FK476279.1|FK476279
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
EST: gi|14259863|gb|BG882771.1|BG882771
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... ttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taccatgagttttagtatctattttattttttaaatgatctgggtttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACCAATTGGCATTTAGTTTCCTGATGTTCAG
     tgagttttagtatcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactggcgtgtgacatcactttttagcctattagtcttctttcctcataccatgagttttagtatctattttattttttaaatgatctgggtttggatttagGTTCTCTTCTGGCCATGGGACTATTGGTATGTTCGCGGGCACCGGTGGACCAATTGGCATTTAGTTTCCTGATGTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA