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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggggatttttccaaccaggattagactgttggtcttctgaatcattcttcttaatgttttattggacctatctcatctgtaccttgtattaattttgcagTTCTTTAAAAAAGAAACTGAAAGATAAAATGGCTGAATTTCAG

Basic information

species Glycine max
transcript GLYMA16G27050.1
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|13252253|gb|BG363156.1|BG363156
EST:     GGGTGTGGAAAAGGATCAGGTGTTGACCGGTCAAGAACAGCGACAACCAT                         TTCTTTAAAAAAGAAACTGAAAGAT
genomic: GGGTGTGGAAAAGGATCAGGTGTTGACCGGTCAAGAACAGCGACAACCATgtcagtgata ... aattttgcagTTCTTTAAAAAAGAAACTGAAAGAT
EST: gi|21888883|gb|BQ742096.1|BQ742096
EST:     GGGTGTGGAAAAGGATCAGGTGTTGACCGGTCAAGAACAGCGACAACCAT                         TTCTTTAAAAAAGAAACTGAAAGATAAAATGGCTGAATTTCAG
genomic: GGGTGTGGAAAAGGATCAGGTGTTGACCGGTCAAGAACAGCGACAACCATgtcagtgata ... aattttgcagTTCTTTAAAAAAGAAACTGAAAGATAAAATGGCTGAATTTCAG
EST: gi|192324538|gb|FK016789.1|FK016789
EST:     GGGTGTGGAAAAGGATCAGGTGTTGACCGGTCAAGAACAGCGACAACCAT                         TTCTTTAAAAAAGAAACTGAAAGATAAAATGGCTGAATTTCAG
genomic: GGGTGTGGAAAAGGATCAGGTGTTGACCGGTCAAGAACAGCGACAACCATgtcagtgata ... aattttgcagTTCTTTAAAAAAGAAACTGAAAGATAAAATGGCTGAATTTCAG
EST: gi|192294341|gb|FG987270.1|FG987270
EST:     GGTGTGGAAAAGGATCAGGTGTTTGACCGGTCAAGAACAGCGACAACCAT                         TTTCTTTAAAAAAGAAACTGAAAGATAAAATGGGCTGAATTTCAG
genomic: GGTGTGGAAAAGGATCAGGTGTT-GACCGGTCAAGAACAGCGACAACCATgtcagtgata ... aattttgcagTT-CTTTAAAAAAGAAACTGAAAGATAAAATGG-CTGAATTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcttaatgttttattggacctatctcatctgtaccttgtattaattttgcagTTCTTTAAAAAAGAAACTGAAAGATAAAATGGCTGAATTTCAG
                                         tattaat  putative branch site (score: 2)
 ttaatgttttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggggatttttccaaccaggattagactgttggtcttctgaatcattcttcttaatgttttattggacctatctcatctgtaccttgtattaattttgcagTTCTTTAAAAAAGAAACTGAAAGATAAAATGGCTGAATTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - ccaacca
- - - - - - - - - - - - actgttg
- - - - - - - - - - - - - - - - tcttctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgtacc