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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tactggtgaaattgttttattaaatttttactttcttatggctttgatttatgcttatctctgtttttattttaattattttgtgtttttttttaaatagTTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAGCATAATTTCCTTTCAACAATGACTACTAACAACACTACTGAGGAAGGAA

Basic information

species Glycine max
transcript GLYMA13G17370.1
intron # 3
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|254329164|gb|GR833536.1|GR833536
EST:     GTGGAGTAGGATATATTCGAAGCGCAAGATATCATCACAATCAACCTCTG                         TTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAG
genomic: GTGGAGTAGGATATATTCGAAGCGCAAGATATCATCACAATCAACCTCTGgttagtcttt ... ttttaaatagTTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAG
EST: gi|193427054|gb|FK397515.1|FK397515
EST:     AATCAACCTCTG                         TTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAG
genomic: AATCAACCTCTGgttagtcttt ... ttttaaatagTTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAG
EST: gi|193346230|gb|FK309722.1|FK309722
EST:     AATCAACCTCTG                         TTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAG
genomic: AATCAACCTCTGgttagtcttt ... ttttaaatagTTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAG
EST: gi|254329165|gb|GR833537.1|GR833537
EST:     GTGGAGTAGGATATA-TCGAAGCGCAAGATATCATCACAATCAACCTCTG                         TTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAG
genomic: GTGGAGTAGGATATATTCGAAGCGCAAGATATCATCACAATCAACCTCTGgttagtcttt ... ttttaaatagTTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAG
EST: gi|298165268|gb|HO011317.1|HO011317
EST:     GTGGAGTAGGATATATTCGAAGCGCAAGATATCATCACAATCAACCTCTG                         TTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAG
genomic: GTGGAGTAGGATATATTCGAAGCGCAAGATATCATCACAATCAACCTCTGgttagtcttt ... ttttaaatagTTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttatgcttatctctgtttttattttaattattttgtgtttttttttaaatagTTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAGCATAATTTCCTTTCAACAATGACTACTAACAACACTACTGAGGAAGGAA
                        ttttaat  putative branch site (score: 3)
                                 ttttgtgttttttttt  putative PPT
                tgtttttattttaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tactggtgaaattgttttattaaatttttactttcttatggctttgatttatgcttatctctgtttttattttaattattttgtgtttttttttaaatagTTTCAACAGCATTCTTTTACTAAGTTATACAAGGGAGCCATGATAGAAAAGCATAATTTCCTTTCAACAATGACTACTAACAACACTACTGAGGAAGGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA