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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctttatactatcgttggatggtctagacatgtaatttattcctaataagatgatttatagaattcataagttaattatattattattttgatttttacagTGGAGGATTGGCTGAAGCCTAATGCAGTGTTGGGAGCATTTGAAGCTAGGGCTGCTAAGAAGGTGGTTGCTTGTGCTCAAAATCTCAGCAAGTTTACCAA

Basic information

species Glycine max
transcript GLYMA05G04940.1
intron # 10
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|192328166|gb|FK022860.1|FK022860
EST:     CATTGGACGAGTGGAACAGCTTATGCAATATCGTTCTGATGTTCAGAAAG                         TGGAGGATTGGCTGAAGCCTGATGCAGTGTTGGGAGCATTTGAAGCTAGGG
genomic: CATTGGACGAGTGGAACAGCTTATGCAATATCGTTCTGATGTTCAGAAAGgtataactgt ... atttttacagTGGAGGATTGGCTGAAGCCTAATGCAGTGTTGGGAGCATTTGAAGCTAGGG
EST: gi|208325517|gb|GE120179.1|GE120179
EST:     CATTGGACGAGTGGAACAGCTTATGCAATATCGTTCTGATGTTCAGAAAG                         TGGAGGATTGGCTGAAGCCTAATGCA
genomic: CATTGGACGAGTGGAACAGCTTATGCAATATCGTTCTGATGTTCAGAAAGgtataactgt ... atttttacagTGGAGGATTGGCTGAAGCCTAATGCA
EST: gi|21995041|gb|BQ786569.1|BQ786569
EST:     CATTGGACGAGTGGAACAGCTTATGCAATATCGTTCTGATGTTCAGAAAG                         TGGAGGATTGGCTGAAGCCTAATGCAGTGTTGGGAGCATTTGAAGCTAGGG
genomic: CATTGGACGAGTGGAACAGCTTATGCAATATCGTTCTGATGTTCAGAAAGgtataactgt ... atttttacagTGGAGGATTGGCTGAAGCCTAATGCAGTGTTGGGAGCATTTGAAGCTAGGG
EST: gi|192321454|gb|FK011740.1|FK011740
EST:     CATTGGACGAGTGGAACAGCTTATGCAATATCGTTCTGATGTTCAGAAAG                         TGGAGGATTGGCTGAAGCCTAATGCAGTGTTGGGAGCATTTGAAGCTAGGG
genomic: CATTGGACGAGTGGAACAGCTTATGCAATATCGTTCTGATGTTCAGAAAGgtataactgt ... atttttacagTGGAGGATTGGCTGAAGCCTAATGCAGTGTTGGGAGCATTTGAAGCTAGGG
EST: gi|192328167|gb|FK022861.1|FK022861
EST:     TGTTCAGAAAG                         TGGAGGATTGGCTGAAGCCTGATGCAGTGTTGGGAGCATTTGAAGCTAGGG
genomic: TGTTCAGAAAGgtataactgt ... atttttacagTGGAGGATTGGCTGAAGCCTAATGCAGTGTTGGGAGCATTTGAAGCTAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagatgatttatagaattcataagttaattatattattattttgatttttacagTGGAGGATTGGCTGAAGCCTAATGCAGTGTTGGGAGCATTTGAAGCTAGGGCTGCTAAGAAGGTGGTTGCTTGTGCTCAAAATCTCAGCAAGTTTACCAA
                                        ttttgat  putative branch site (score: 4)
                                              tttttac  CT-rich tract
     tgatttatagaattca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctttatactatcgttggatggtctagacatgtaatttattcctaataagatgatttatagaattcataagttaattatattattattttgatttttacagTGGAGGATTGGCTGAAGCCTAATGCAGTGTTGGGAGCATTTGAAGCTAGGGCTGCTAAGAAGGTGGTTGCTTGTGCTCAAAATCTCAGCAAGTTTACCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - tggatgg
- - - - - - - - - - - - - -catgtaa