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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatgctgcattctgtttgtgtctgagcatttgtaaaggaatgctgtaatggtacgtgaagtttgttttgccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTCTATGGAGCTGACATGGTTCTAAAGGCATCTAATATAGATGGCAATGTGC

Basic information

species Glycine max
transcript GLYMA04G00200.1
intron # 16
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|10254009|gb|BE821775.1|BE821775
EST:     GTTGATTNGAAATNAATGGATCTGAGCTATTTACTGGAG                         GATAAATATTCTATGNACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
genomic: GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAGgtgagatgct ... ccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
EST: gi|208279807|gb|GE078451.1|GE078451
EST:     GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG                         GATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
genomic: GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAGgtgagatgct ... ccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
EST: gi|17400899|gb|BM177681.1|BM177681
EST:     GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG                         GATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
genomic: GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAGgtgagatgct ... ccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
EST: gi|193578353|gb|FK537573.1|FK537573
EST:     GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG                         GATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
genomic: GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAGgtgagatgct ... ccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
EST: gi|208266208|gb|GE064543.1|GE064543
EST:     GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG                         GATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
genomic: GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAGgtgagatgct ... ccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
EST: gi|208310396|gb|GE103796.1|GE103796
EST:     TGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG                         GATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
genomic: TGATTGGAAATTAATGGATCTGAGCTATTTACTGGAGgtgagatgct ... ccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
EST: gi|207826963|gb|GD801138.1|GD801138
EST:     GTTGATTGGAA-TTAATGGATCTGAGCTATTTACTGGAG                         GATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
genomic: GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAGgtgagatgct ... ccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
EST: gi|308098353|gb|HO760094.1|HO760094
EST:     GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG                         GATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
genomic: GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAGgtgagatgct ... ccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
EST: gi|14011124|gb|BG726055.1|BG726055
EST:     GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG                         GATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC
genomic: GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAGgtgagatgct ... ccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcatttgtaaaggaatgctgtaatggtacgtgaagtttgttttgccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTCTATGGAGCTGACATGGTTCTAAAGGCATCTAATATAGATGGCAATGTGC
                                             ccatttcc  CT-rich tract
                                    tttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagatgctgcattctgtttgtgtctgagcatttgtaaaggaatgctgtaatggtacgtgaagtttgttttgccatttccagGATAAATATTCTATGCACTTTGCGAATGTTATTAAGAAAGCTACACCTGTCTATGGAGCTGACATGGTTCTAAAGGCATCTAATATAGATGGCAATGTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA