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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtggtttctttaaacttggtgtcaactattgcctcttgctcttgacttaatatgtcaaatagcattgttatcaatgatggtgctatgcaatactcttgtaacatgaaacctttcaaatacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATGCTTGGGGGAGAACCTGATACCAAAACGACTTCGACGAGTTCTTTTGCTC

Basic information

species Glycine max
transcript GLYMA17G14450.1
intron # 15
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|213600619|gb|DB956179.1|DB956179
EST:     CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAG                         GTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
genomic: CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAGgtgtggtttc ... tacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
EST: gi|193553032|gb|FK507443.1|FK507443
EST:     CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAG                         GTAGCGAAGTTGACAGATGAGGATGCAATT
genomic: CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAGgtgtggtttc ... tacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATT
EST: gi|193416170|gb|FK378036.1|FK378036
EST:     CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAG                         GTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
genomic: CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAGgtgtggtttc ... tacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
EST: gi|254340092|gb|GR858217.1|GR858217
EST:     CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAG                         GTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
genomic: CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAGgtgtggtttc ... tacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
EST: gi|193322590|gb|FK290366.1|FK290366
EST:     CATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTTAATGAAG                         GTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
genomic: CATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTT-AATGAAGgtgtggtttc ... tacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
EST: gi|193329260|gb|FK295630.1|FK295630
EST:     CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAG                         GTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAAATTTAGAAGA
genomic: CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAGgtgtggtttc ... tacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAA-TTT-GA-GA
EST: gi|308098914|gb|HO760755.1|HO760755
EST:     CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAG                         GTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
genomic: CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAGgtgtggtttc ... tacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
EST: gi|193398962|gb|FK363862.1|FK363862
EST:     CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAG                         GTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAAATAATTTGAAGAA
genomic: CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAGgtgtggtttc ... tacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAA-TAATTTGA-GAA
EST: gi|193365623|gb|FK329820.1|FK329820
EST:     CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAG                         GTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG
genomic: CCATATATCCTGAGAAATTTGAGGCTGAAAAGGGTCTGAATTTAATGAAGgtgtggtttc ... tacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgatggtgctatgcaatactcttgtaacatgaaacctttcaaatacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATGCTTGGGGGAGAACCTGATACCAAAACGACTTCGACGAGTTCTTTTGCTC
                       ttgtaac  putative branch site (score: 2)
                                             tacttttc  putative PPT
                                      tttcaaatactttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtggtttctttaaacttggtgtcaactattgcctcttgctcttgacttaatatgtcaaatagcattgttatcaatgatggtgctatgcaatactcttgtaacatgaaacctttcaaatacttttcagGTAGCGAAGTTGACAGATGAGGATGCAATTGCAATAAATAATTTGAGAATGCTTGGGGGAGAACCTGATACCAAAACGACTTCGACGAGTTCTTTTGCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA