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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgccacctagtacctaggttatttggtacctgcacttgttatcattttttagtttattggcttctagtgccttacaccttgcaattaactatgtgcagGAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTGCAACATGAAACT

Basic information

species Glycine max
transcript GLYMA09G33160.1
intron # 1
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|18734891|gb|BM528445.1|BM528445
EST:     TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCG                         GAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTG
genomic: TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCGgtaagttatg ... ctatgtgcagGAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTG
EST: gi|19053956|gb|BM732623.1|BM732623
EST:     TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCG                         GAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTG
genomic: TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCGgtaagttatg ... ctatgtgcagGAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTG
EST: gi|15288236|gb|BI472127.1|BI472127
EST:     TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCG                         GAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTG
genomic: TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCGgtaagttatg ... ctatgtgcagGAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTG
EST: gi|308098228|gb|HO759969.1|HO759969
EST:     TAGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCG                         GAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTG
genomic: TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCGgtaagttatg ... ctatgtgcagGAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTG
EST: gi|193397321|gb|FK363355.1|FK363355
EST:     TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCG                         GAACTGAATCCTA
genomic: TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCGgtaagttatg ... ctatgtgcagGAACTGAATCCTA
EST: gi|120534087|gb|EH262220.1|EH262220
EST:     TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCG                         GAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTG
genomic: TTGTGTCCTTCTCCACTTTCACACATGCCTTCTCTTCTTCTGCGTTTCCGgtaagttatg ... ctatgtgcagGAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttttagtttattggcttctagtgccttacaccttgcaattaactatgtgcagGAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTGCAACATGAAACT
                                       aattaac  putative branch site (score: 2)
     ttagtttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatgccacctagtacctaggttatttggtacctgcacttgttatcattttttagtttattggcttctagtgccttacaccttgcaattaactatgtgcagGAACTGAATCCTATAAAACCTAGGCACTCACGTCTTCTCAGGAGTGCCGTGCAACATGAAACT

- tgccacc
- - - - - - - - - - - - - - -acctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctagtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttgca