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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccctcactgcactccataatattcctcgtttgatatatggacataaaagcccagaatgtaagacatatgatgctatgcttgtatttctcatgtatttagAAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGGAGAATACTGCTGGAGAAATGCAGGGTTCTTTTCAACCAGCTTCAAGAGT

Basic information

species Glycine max
transcript GLYMA04G06980.1
intron # 9
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|192300313|gb|FG987860.1|FG987860
EST:     AGTTAAAGAAAGAACTTAGTGAGTCTATAAAGGAACACAGTGAAACTGAG                         AAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGG
genomic: AGTTAAAGAAAGAACTTAGTGAGTCTATAAAGGAACACAGTGAAACTGAGgtaggttata ... atgtatttagAAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGG
EST: gi|14011062|gb|BG725984.1|BG725984
EST:     AGTTAAAGAAAGAACTTAGTGAGTCTATAAAGGAACACAGTGAAACTGAG                         AAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGG
genomic: AGTTAAAGAAAGAACTTAGTGAGTCTATAAAGGAACACAGTGAAACTGAGgtaggttata ... atgtatttagAAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGG
EST: gi|11274322|gb|BF324690.1|BF324690
EST:     AGTTAAAGAAAGAACTTAGTGAGTCTATAAAGGAACACAGTGAAACTGAG                         AAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGG
genomic: AGTTAAAGAAAGAACTTAGTGAGTCTATAAAGGAACACAGTGAAACTGAGgtaggttata ... atgtatttagAAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGG
EST: gi|151402539|gb|EV272352.1|EV272352
EST:     AGTTAAAGAAAGAACTTAGTGAGTCTATAAAGGAACACAGTGAAACTGAG                         AAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGG
genomic: AGTTAAAGAAAGAACTTAGTGAGTCTATAAAGGAACACAGTGAAACTGAGgtaggttata ... atgtatttagAAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGG
EST: gi|22933881|gb|BU551020.1|BU551020
EST:     TAAAGAAAGAACTTAGTGAGTCTATAAAGGAACACAGTGAAACTGAG                         AAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGG
genomic: TAAAGAAAGAACTTAGTGAGTCTATAAAGGAACACAGTGAAACTGAGgtaggttata ... atgtatttagAAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaagcccagaatgtaagacatatgatgctatgcttgtatttctcatgtatttagAAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGGAGAATACTGCTGGAGAAATGCAGGGTTCTTTTCAACCAGCTTCAAGAGT
                                       tttctcat  CT-rich tract
                                             atgtattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccctcactgcactccataatattcctcgtttgatatatggacataaaagcccagaatgtaagacatatgatgctatgcttgtatttctcatgtatttagAAACTACTTCTGCACGAAAGAGAGAAGAGGGAGCAGGCAGAAGTGGCTCGGAGAATACTGCTGGAGAAATGCAGGGTTCTTTTCAACCAGCTTCAAGAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
-ccctcac
- - - - - cactcca
- - - - - - - - - - - - - - - - - - - - - - - - - cccagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgct