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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttttttggcaagttacttttgaaatctagaatgttacttcttactgattgctagtaatcattttgctagGAATCTGAGCAGAAATCATTTAACAGGGTTTATTCCAGCAGAATTTGGAAATCTAAGAAGTGTCATGGATAT

Basic information

species Glycine max
transcript GLYMA06G05900.3
intron # 18
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|208316155|gb|GE117409.1|GE117409
EST:     ATTGGTTCTATTCCTTCTTCCATTGGTGACTTGGAACATCTTCTGAAGTT                         A
genomic: ATTGGTTCTATTCCTTCTTCCATTGGTGACTTGGAACATCTTCTGAAGTTgtgagttttt ... attttgctag-
EST: gi|208316155|gb|GE117409.1|GE117409
EST:     ATTGGTTCTATTCCTTCTTCCATTGGTGACTTGGAACATCTTCTGAAGTT                         A
genomic: ATTGGTTCTATTCCTTCTTCCATTGGTGACTTGGAACATCTTCTGAAGTTgtgagttttt ... attttgctag-
EST: gi|192296635|gb|FG991203.1|FG991203
EST:     ATTGGTTCTATTCCTTCTTCCATTGGTGACTTGGAACATCTTCTGAAGTT                         GAATCTGAGCAGAAATCATTTAACAGGGTTTATTCCAGCAGAATTTGGAAA
genomic: ATTGGTTCTATTCCTTCTTCCATTGGTGACTTGGAACATCTTCTGAAGTTgtgagttttt ... attttgctagGAATCTGAGCAGAAATCATTTAACAGGGTTTATTCCAGCAGAATTTGGAAA
EST: gi|208110587|gb|GD910489.1|GD910489
EST:     GGAACATCTTCTGTAAGTTT                         GAATCTGAGCAGAAATCATTTAACAGGGTTTATTCCAGCAGAATTTGGAA
genomic: GGAACATCTTCTG-AAG-TTgtgagttttt ... attttgctagGAATCTGAGCAGAAATCATTTAACAGGGTTTATTCCAGCAGAATTTGGAA
EST: gi|208071387|gb|GD872988.1|GD872988
EST:     ATTGGTTCTATTCCTTCTTCCATTGGTGACTTGGAACATCTTCTGAAGTT                         GAATCTGAGCAGAAATCATTTAACAGGGTTTATTCCAGCAGAATTTGGAAA
genomic: ATTGGTTCTATTCCTTCTTCCATTGGTGACTTGGAACATCTTCTGAAGTTgtgagttttt ... attttgctagGAATCTGAGCAGAAATCATTTAACAGGGTTTATTCCAGCAGAATTTGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttttgaaatctagaatgttacttcttactgattgctagtaatcattttgctagGAATCTGAGCAGAAATCATTTAACAGGGTTTATTCCAGCAGAATTTGGAAATCTAAGAAGTGTCATGGATAT
                           tactgat  putative branch site (score: 2)
                                           tcatttt  putative PPT
                                        taatcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtttttttggcaagttacttttgaaatctagaatgttacttcttactgattgctagtaatcattttgctagGAATCTGAGCAGAAATCATTTAACAGGGTTTATTCCAGCAGAATTTGGAAATCTAAGAAGTGTCATGGATAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA