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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcactcttccttcttcttcttcttcttcttcttcttcaggagagagatgcgaagaggaaaaaggttcgatttttctgctaagaaaacctaacaaactaatatttttggataaaaataaataaaaagtcttccttccttttgtttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCCATGGAAGACTTTGCCGTCAGAGGCAAAGAGCCCAAAGACGAGGTTCAGA

Basic information

species Glycine max
transcript GLYMA03G02240.1
intron # 1
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|193377631|gb|FK341981.1|FK341981
EST:     CGCCT-CTCCCCCCTCTCGCCCTCGCCTCGAACCCGTCGATCGCGAAAAG                         ACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
genomic: CGCCTCCTCCCCCCTCTCGCCCTCGCCTCGAACCCGTCGATCGCGAAAAGgtactcactc ... tttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
EST: gi|58020613|gb|CX707355.1|CX707355
EST:     GAACCCGTCGATCGCGAAAAG                         ACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
genomic: GAACCCGTCGATCGCGAAAAGgtactcactc ... tttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
EST: gi|22929929|gb|BU547068.1|BU547068
EST:     CGCCCTCGCCTCGAACCCGTCGATCGCGAAAAG                         ACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
genomic: CGCCCTCGCCTCGAACCCGTCGATCGCGAAAAGgtactcactc ... tttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
EST: gi|31467784|gb|CD409812.1|CD409812
EST:     CCCCCCTCTCGCCCTCGCCTCGAACCCGTCGATCGCGAAAAG                         ACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
genomic: CCCCCCTCTCGCCCTCGCCTCGAACCCGTCGATCGCGAAAAGgtactcactc ... tttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
EST: gi|7234436|gb|AW569773.1|AW569773
EST:     CTCGCCCTCGCCTCGAACCCGTCGATCGCGAAAAG                         ACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
genomic: CTCGCCCTCGCCTCGAACCCGTCGATCGCGAAAAGgtactcactc ... tttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
EST: gi|207735186|gb|GD712941.1|GD712941
EST:     CTCGCCTCGAACCCGTCGATCGCGAAAAG                         ACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
genomic: CTCGCCTCGAACCCGTCGATCGCGAAAAGgtactcactc ... tttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
EST: gi|31475122|gb|CD417150.1|CD417150
EST:     CGCCTCCTCCCCCCTCTCGCCCTCGCCTCGAACCCGTCGATCGCGAAAAG                         ACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
genomic: CGCCTCCTCCCCCCTCTCGCCCTCGCCTCGAACCCGTCGATCGCGAAAAGgtactcactc ... tttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
EST: gi|193473329|gb|FK438696.1|FK438696
EST:     GCCCTCGCCTCGAACCCGTCGATCGCGAAAAG                         ACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
genomic: GCCCTCGCCTCGAACCCGTCGATCGCGAAAAGgtactcactc ... tttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
EST: gi|192328075|gb|FK020378.1|FK020378
EST:     CGCCTCCTCCCCCCTCTCGCCCTCGCCTCGAACCCGTCGGTCGCGAAAAG                         ACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
genomic: CGCCTCCTCCCCCCTCTCGCCCTCGCCTCGAACCCGTCGATCGCGAAAAGgtactcactc ... tttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
EST: gi|58016323|gb|CX703065.1|CX703065
EST:     CGCATCCTCCCCCCTCTCGCCCTCGCCTAGAACCCGTCGATCGCGAAAAG                         ACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC
genomic: CGCCTCCTCCCCCCTCTCGCCCTCGCCTCGAACCCGTCGATCGCGAAAAGgtactcactc ... tttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatatttttggataaaaataaataaaaagtcttccttccttttgtttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCCATGGAAGACTTTGCCGTCAGAGGCAAAGAGCCCAAAGACGAGGTTCAGA
 aactaat  putative branch site (score: 2)
                              tcttccttccttttgt  putative PPT
     tttttggataaaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactcactcttccttcttcttcttcttcttcttcttcttcaggagagagatgcgaagaggaaaaaggttcgatttttctgctaagaaaacctaacaaactaatatttttggataaaaataaataaaaagtcttccttccttttgtttctttcagACATGTCCGTTACTGCTGCGAGTGTTCACTAAGATTGGGAGTCACCATTCCATGGAAGACTTTGCCGTCAGAGGCAAAGAGCCCAAAGACGAGGTTCAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG