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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgtgaaaacagactgtcattttaaatgcagctttgaaacatgtcataatttgttctatttttttaaacctttatttccctgctcttattttgtttacagGATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGACCTTAGATATG

Basic information

species Glycine max
transcript GLYMA09G04910.1
intron # 11
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|193326912|gb|FK287795.1|FK287795
EST:     CTCTTTCAGGTCATGATAACACTGTCTGTTCTGTGTTTACGCGGCCAACG                         GATCCCCAAGTTGTTACAGGTTCTCAAATGACACTACCATCAAGATGTGGG
genomic: CTCTTTCAGGTCATGATAACACTGTCTGTTCTGTGTTTACGCGGCCAACGgtatgcagac ... ttgtttacagGATCCCCAAGTTGTTACAGGTTCTCA--TGACACTACCATCAAGATGTGGG
EST: gi|21888738|gb|BQ741951.1|BQ741951
EST:     CTCTTTCAGGTCATGATAACACTGTCTGTTCTGTGTTTACGCGGCCAACG                         GATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGAC
genomic: CTCTTTCAGGTCATGATAACACTGTCTGTTCTGTGTTTACGCGGCCAACGgtatgcagac ... ttgtttacagGATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGAC
EST: gi|10236381|gb|BE805269.1|BE805269
EST:     GATAACACTGTCTGTTCTGTGTTTACGCGGCCAACG                         GATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGAC
genomic: GATAACACTGTCTGTTCTGTGTTTACGCGGCCAACGgtatgcagac ... ttgtttacagGATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGAC
EST: gi|193460952|gb|FK426699.1|FK426699
EST:     TAACACTGTCTGTTCTGTGTTTACGCGGCCAACG                         GATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGAC
genomic: TAACACTGTCTGTTCTGTGTTTACGCGGCCAACGgtatgcagac ... ttgtttacagGATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGAC
EST: gi|254313963|gb|GR831592.1|GR831592
EST:     CTCTTTCAGGACATGATAACACTGTCTGCTCTGTGTTTACGCGGCCGACG                         GATCCCCAAGTTGTTACGGGTTCTCATGACACTACCATCAAGATGTGGGAC
genomic: CTCTTTCAGGTCATGATAACACTGTCTGTTCTGTGTTTACGCGGCCAACGgtatgcagac ... ttgtttacagGATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGAC
EST: gi|208324693|gb|GE125770.1|GE125770
EST:     AACACTGTCTGTTTTCTTGTTGTTTACGCGGCCAACG                         GATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGAC
genomic: AACACTGTCTG--TTC-TG-TGTTTACGCGGCCAACGgtatgcagac ... ttgtttacagGATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatttgttctatttttttaaacctttatttccctgctcttattttgtttacagGATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGACCTTAGATATG
                       cctttatttccctgct  CT-rich tract
     ttgttctattttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgtgaaaacagactgtcattttaaatgcagctttgaaacatgtcataatttgttctatttttttaaacctttatttccctgctcttattttgtttacagGATCCCCAAGTTGTTACAGGTTCTCATGACACTACCATCAAGATGTGGGACCTTAGATATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - actgtca
- - - - - - - - - - - - - tgcagct
- - - - - - - - - - - - - - - - - - - acatgtc