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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccaagatcagcatcaactctggaaattctgtatcaaggattaacattttctttcctcataatgaagggatattagctaaactttattaaattgttacagGGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAAAGTTGCTAATGGAGAGGATACCAGCAAGGGCAAGACTAATCATGTTGAA

Basic information

species Glycine max
transcript GLYMA19G10120.1
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|298191419|gb|HO038898.1|HO038898
EST:     TTATTGGACCAACATATTGCAAAGGGAGAGGTCATCAAACGACTTTTGAG                         GGGCCAAATGGGAACATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAA
genomic: TTGTTGGACCAACATATTGCAAAGGGAGAGGTCATCAAACGACTTTTGAGgttggtattt ... attgttacagGGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAA
EST: gi|192332184|gb|FK023833.1|FK023833
EST:     TTGTTGGACCAACATATTGCAAAGGGAGAGGTCATCAAACGACTTTTGAG                         GGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAA
genomic: TTGTTGGACCAACATATTGCAAAGGGAGAGGTCATCAAACGACTTTTGAGgttggtattt ... attgttacagGGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAA
EST: gi|58021090|gb|CX707832.1|CX707832
EST:     TTGTTGGACCAACATATTGCAAAGGGAGAGGTCATCAAACGACTTTTGAG                         GGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAA
genomic: TTGTTGGACCAACATATTGCAAAGGGAGAGGTCATCAAACGACTTTTGAGgttggtattt ... attgttacagGGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAA
EST: gi|51343987|gb|CO984720.1|CO984720
EST:     TTGTTGGACCAACATATTGCAAAGGGAGAGGTCATCAAACGACTTTTGAG                         GGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAA
genomic: TTGTTGGACCAACATATTGCAAAGGGAGAGGTCATCAAACGACTTTTGAGgttggtattt ... attgttacagGGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAA
EST: gi|58017812|gb|CX704554.1|CX704554
EST:     TTGTTGGACCAACATATTGCAAAGGGAGAGGTCATCAAACGACTTTTGAG                         GGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAA
genomic: TTGTTGGACCAACATATTGCAAAGGGAGAGGTCATCAAACGACTTTTGAGgttggtattt ... attgttacagGGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttctttcctcataatgaagggatattagctaaactttattaaattgttacagGGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAAAGTTGCTAATGGAGAGGATACCAGCAAGGGCAAGACTAATCATGTTGAA
                             agctaaa  putative branch site (score: 3)
                        atattagctaaacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccaagatcagcatcaactctggaaattctgtatcaaggattaacattttctttcctcataatgaagggatattagctaaactttattaaattgttacagGGGCCAAATGGGGCCATCTGTTGCAGAAGATAAGGGAGCAGATGACCAGAAAGTTGCTAATGGAGAGGATACCAGCAAGGGCAAGACTAATCATGTTGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - -catcaac
- - - - - - - - - - - - - ttctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctaaac