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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttaaatttctcctttgcaaccgtcttcttatttttatacatagaacagaaagagataaaaacatagtgaatatatttatgaactgcaatttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATAGAG

Basic information

species Glycine max
transcript GLYMA02G16010.1
intron # 4
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|10237572|gb|BE806460.1|BE806460
EST:     ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAG                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
genomic: ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
EST: gi|192318300|gb|FK005804.1|FK005804
EST:     ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAC                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCCAAAGATGGAGCTATA
genomic: ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
EST: gi|19346748|gb|BM891628.1|BM891628
EST:     ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAG                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
genomic: ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
EST: gi|151396456|gb|EV266333.1|EV266333
EST:     ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAG                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
genomic: ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
EST: gi|192314162|gb|FK011534.1|FK011534
EST:     AGGACGCAGACCTAATACTCAG                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
genomic: AGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
EST: gi|37995669|gb|CF807258.1|CF807258
EST:     ACGGTTTCTCACATATTATGTTTGCTACAGGACGCANACCTAATACTCAG                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
genomic: ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
EST: gi|10231243|gb|BE800059.1|BE800059
EST:     ACGGTTTCTCACATATTATGTTTGCTACAGGACGCTGACCTAATACTCAG                         AACTTAGGCCTGTAGTCTGTTGGTGTGAAACTAGCTTAAGATGGAGCTATA
genomic: ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
EST: gi|7924612|gb|AW830638.1|AW830638
EST:     ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAG                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
genomic: ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
EST: gi|8283020|gb|BE020581.1|BE020581
EST:     GGACGCAGACCTAATACTCAG                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAAATAGCTAAAGATGGAGCTATA
genomic: GGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
EST: gi|254323695|gb|GR836034.1|GR836034
EST:     ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAG                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
genomic: ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA
EST: gi|208065242|gb|GD862150.1|GD862150
EST:     ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAG                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGA
genomic: ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGA
EST: gi|192318301|gb|FK005805.1|FK005805
EST:     ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAG                         AACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCCAAAGATGGAGCTATA
genomic: ACGGTTTCTCACATATTATGTTTGCTACAGGACGCAGACCTAATACTCAGgtattatttt ... ttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagaaagagataaaaacatagtgaatatatttatgaactgcaatttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATAGAG
                                            tttcact  CT-rich tract
          ataaaaacatagtgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaaatttctcctttgcaaccgtcttcttatttttatacatagaacagaaagagataaaaacatagtgaatatatttatgaactgcaatttcactgcagAACTTAGGCCTGGAGTCTGTTGGTGTGAAACTAGCTAAAGATGGAGCTATAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT