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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactggcgtgtgacatcacattttagcctattagtcttctttacccatgccatgaattttagtatctataatttgtttgtttgttttttttttatgatctgggttggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACCGATTGGCATTTAGTTTCCTGATGTTCAG

Basic information

species Glycine max
transcript GLYMA12G01350.1
intron # 7
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|7588544|gb|AW704267.1|AW704267
EST:     TCTGCTCTAGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... tggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
EST: gi|10842950|gb|BF066308.1|BF066308
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGAACTATTGGTATGTTCTCAGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... tggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
EST: gi|193541819|gb|FK496589.1|FK496589
EST:     ATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
genomic: ATCCTTTAATTGCCAAATACCAAGgtactggcgt ... tggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
EST: gi|9903216|gb|BE612184.1|BE612184
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... tggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
EST: gi|27445790|gb|CA952913.1|CA952913
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... tggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
EST: gi|8282898|gb|BE020459.1|BE020459
EST:     TCTGCTCTAGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... tggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
EST: gi|27425986|gb|CA937506.1|CA937506
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... tggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
EST: gi|10846400|gb|BF069308.1|BF069308
EST:     TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAG                         GTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC
genomic: TCTGCTCTTGACATGGGAACTTTCAAATCCTTTAATTGCCAAATACCAAGgtactggcgt ... tggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtatctataatttgtttgtttgttttttttttatgatctgggttggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACCGATTGGCATTTAGTTTCCTGATGTTCAG
                                                ttttt  CT-rich tract
     tctataatttgtttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactggcgtgtgacatcacattttagcctattagtcttctttacccatgccatgaattttagtatctataatttgtttgtttgttttttttttatgatctgggttggtttttagGTTCTCTTCTGGCCATGGAACTATTGGTATGTTCGCAGGCACCGGTGGACCGATTGGCATTTAGTTTCCTGATGTTCAG

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