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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactataataatattatagcacacatttggaagtgactggtcttaatcatgcgtttattgatgatttcttgtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTTGCGAACAAAAGTAAGATGCTGAGACTATTGGAAGACTTCAAAATTGATA

Basic information

species Glycine max
transcript GLYMA15G12220.2
intron # 7
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|14991297|gb|BI316970.1|BI316970
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|31463880|gb|CD405908.1|CD405908
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|21994680|gb|BQ786208.1|BQ786208
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|22932404|gb|BU549543.1|BU549543
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|23734444|gb|BU765448.1|BU765448
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|31474015|gb|CD416043.1|CD416043
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGAAATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|13312864|gb|BG406515.1|BG406515
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|22928039|gb|BU545178.1|BU545178
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|9901558|gb|BE610526.1|BE610526
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|193352433|gb|FK316829.1|FK316829
EST:     AGCATACAGATTGAAGCATTTCATGTTTTCAGG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: AGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|254318122|gb|GR832290.1|GR832290
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|6724491|gb|AW308890.1|AW308890
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
EST: gi|33389396|gb|CA852603.1|CA852603
EST:     GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAG                         CTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT
genomic: GAGTCAAGCAAGAGCATACAGATTGAAGCATTTCATGTTTTCAAGgtactataat ... gtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggaagtgactggtcttaatcatgcgtttattgatgatttcttgtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTTGCGAACAAAAGTAAGATGCTGAGACTATTGGAAGACTTCAAAATTGATA
                              tattgat  putative branch site (score: 3)
                                       tttcttgtc  putative PPT
                            tttattgatgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactataataatattatagcacacatttggaagtgactggtcttaatcatgcgtttattgatgatttcttgtcataacagCTATTTGCTGCCAACCAACATAAGCCAGCTGATATCGTCAGTATATTTGTTGCGAACAAAAGTAAGATGCTGAGACTATTGGAAGACTTCAAAATTGATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA