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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcttatttagtaagtagttcaatttcaataactaaaccatcttaacctgtgctactttcttttctattgctagcacttcctttaacataatatatttcagTTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCATGGAAACATGAATCCACATCAAGTGATGGAAGAAGACTTTTCATTGACA

Basic information

species Glycine max
transcript GLYMA08G19760.1
intron # 8
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|207848077|gb|GD820530.1|GD820530
EST:     TTATTGGGCTATTATCCACTGGGATTGACAACTGGGGACAT                         TTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCA
genomic: TTATTGGGCTATTATCCACTGGGATTGACAACTGGGGACATgtaagtataa ... tatatttcagTTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCA
EST: gi|24205186|gb|BU964439.1|BU964439
EST:     GGCTATTATCCACTGGGATTGACAACTGGGGACAT                         TTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCA
genomic: GGCTATTATCCACTGGGATTGACAACTGGGGACATgtaagtataa ... tatatttcagTTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCA
EST: gi|51335914|gb|CO979780.1|CO979780
EST:     GGGCTATTATCCACTGGGATTGACAACTGGGGACAT                         TTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCA
genomic: GGGCTATTATCCACTGGGATTGACAACTGGGGACATgtaagtataa ... tatatttcagTTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCA
EST: gi|58020307|gb|CX707049.1|CX707049
EST:     GTTATTGGGCTATTATCCACTGGGATTGACAACTGGGGACAT                         TTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCA
genomic: GTTATTGGGCTATTATCCACTGGGATTGACAACTGGGGACATgtaagtataa ... tatatttcagTTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCA
EST: gi|58016763|gb|CX703505.1|CX703505
EST:     GTTATTGGGCTATTATCCACTGGGATTGACAACTGGGGACAT                         TTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCA
genomic: GTTATTGGGCTATTATCCACTGGGATTGACAACTGGGGACATgtaagtataa ... tatatttcagTTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgtgctactttcttttctattgctagcacttcctttaacataatatatttcagTTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCATGGAAACATGAATCCACATCAAGTGATGGAAGAAGACTTTTCATTGACA
                                  ctttaac  putative branch site (score: 3)
                               ttcctttaacataata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcttatttagtaagtagttcaatttcaataactaaaccatcttaacctgtgctactttcttttctattgctagcacttcctttaacataatatatttcagTTAGGAGGGTTGGTTGGTGGAGTTGCTGCATCATGGTTTATTGGACCGGCATGGAAACATGAATCCACATCAAGTGATGGAAGAAGACTTTTCATTGACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - -ctaaacc
- - - - - - - - - - - - - - - - - - - - - - acctgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacttcc