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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggatctaaaataaccaaaataatcactatggtctagaatatttggaggccctttcttctctttacagattgcaaactctgatgttgtcattttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTGGACATGGATGTTATGGAAAAAGTTCTTGA

Basic information

species Glycine max
transcript GLYMA18G46920.1
intron # 6
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|208049368|gb|GD845737.1|GD845737
EST:     ATATGGAGTGGTAGCCAAGTGAAAGCAATGTGCTGAATGGCGGTAAACCT                         GGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
genomic: ATATGGAGTGG-AGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCTggtaaggata ... tttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
EST: gi|16346580|gb|BI972175.1|BI972175
EST:     TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCT                         GGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
genomic: TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCTggtaaggata ... tttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
EST: gi|151411297|gb|EV281108.1|EV281108
EST:     TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCT                         GGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
genomic: TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCTggtaaggata ... tttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
EST: gi|21994851|gb|BQ786379.1|BQ786379
EST:     TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCT                         GGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
genomic: TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCTggtaaggata ... tttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
EST: gi|17519084|gb|BM188126.1|BM188126
EST:     TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCT                         GGTCCTCATCATATAACTGGCAATGGGGTTGGATTCAAACCAGACATATTG
genomic: TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCTggtaaggata ... tttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
EST: gi|37997634|gb|CF809223.1|CF809223
EST:     TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCT                         GGTCCTCATCATATAACTGGCAATGGAGTTGGATTCACACCAGACATATTG
genomic: TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCTggtaaggata ... tttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
EST: gi|10843246|gb|BF066554.1|BF066554
EST:     TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCT                         GGTCCTCATCATATAACTGGCAATGGAGTTTGATTCAAACCAGACATATTG
genomic: TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCTggtaaggata ... tttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
EST: gi|13482359|gb|BG511702.1|BG511702
EST:     TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCT                         GGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
genomic: TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCTggtaaggata ... tttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
EST: gi|19935078|gb|BQ080108.1|BQ080108
EST:     TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCT                         GGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG
genomic: TATATGGAGTGGAGCCAAGTGAAAGCAATGTGCTGAATGGTGGTAAACCTggtaaggata ... tttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggccctttcttctctttacagattgcaaactctgatgttgtcattttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTGGACATGGATGTTATGGAAAAAGTTCTTGA
                              ctctgat  putative branch site (score: 4)
                                         tcatttt  putative PPT
                                      ttgtcattttatatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggatctaaaataaccaaaataatcactatggtctagaatatttggaggccctttcttctctttacagattgcaaactctgatgttgtcattttatatataGGTCCTCATCATATAACTGGCAATGGAGTTGGATTCAAACCAGACATATTGGACATGGATGTTATGGAAAAAGTTCTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - aaaataa
- - - - - - - - - - - - - - - - - - - - -ttggagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtc