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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaatgaggtttattgcgtgattgatttgtgaatctggaaaaaaatacgagatgttagggatcagatctaacgttttatggctatggatttttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT

Basic information

species Glycine max
transcript GLYMA10G06580.1
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|8284137|gb|BE021696.1|BE021696
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|6454402|gb|AW185085.1|AW185085
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGGAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|213618065|gb|DB963698.1|DB963698
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGGAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|17022031|gb|BM093065.1|BM093065
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|209709321|gb|BW680986.1|BW680986
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGGAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|12690012|gb|BG156348.1|BG156348
EST:     AACCCTCTCCTCGACATCT-TTCCGTCGTCGACGACGCTTTCTTGCAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|151394548|gb|EV264419.1|EV264419
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|5606299|gb|AI900405.1|AI900405
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|120531830|gb|EH259963.1|EH259963
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|19936079|gb|BQ080713.1|BQ080713
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|193353476|gb|FK323682.1|FK323682
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGGAAAA                         -TACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAAC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAAC
EST: gi|13125032|gb|BG315575.1|BG315575
EST:     TCCTAGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: TCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
EST: gi|208328745|gb|GE130869.1|GE130869
EST:     AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGGAAAA                         ATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC
genomic: AACCCTCTCCTCGACATCTCTGCCGTCGTCGACGACGCTTTCTTGCAAAAgtattaccac ... ttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgagatgttagggatcagatctaacgttttatggctatggatttttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT
                   atctaac  putative branch site (score: 2)
                                          tttttgt  putative PPT
                                         atttttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaatgaggtttattgcgtgattgatttgtgaatctggaaaaaaatacgagatgttagggatcagatctaacgttttatggctatggatttttgtgagcagATACGGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
gaatgag
- - - - - - -tgcgtga
- - - - - - - - - - -tgatttg
- - - - - - - - - - - - - - - - - - -aaaaaaa