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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattttgtagaccaagtcagccattgtgtacattgatgatgtgatttcagtttcaacttatgttatgctgttcacacttttatttgtgatgttctttcagATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGATCTTATCCGGAGCGTCCAGGGGAGCCGGATTGTTCATATTACATGAGAAC

Basic information

species Glycine max
transcript GLYMA10G31370.3
intron # 1
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|213619526|gb|DB963436.1|DB963436
EST:     AATGGAGAACAACAACAACAACCACAACCTCATCGTCCCTAATCCTCAAG                         ATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGAT
genomic: AATGGAGAACAACAACAACAACCACAACCTCATCGTCCCTAATCCTCAAGgttctttttt ... gttctttcagATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGAT
EST: gi|17023405|gb|BM094439.1|BM094439
EST:     AATGGAGAACAACAACAACAACCACAACCTCATCGTCCCTAATCCTCAAG                         ATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGAT
genomic: AATGGAGAACAACAACAACAACCACAACCTCATCGTCCCTAATCCTCAAGgttctttttt ... gttctttcagATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGAT
EST: gi|298165142|gb|HO011191.1|HO011191
EST:     AATGGAGAACAACAACAACAACCACAACCTTATCGTCCCTAATCCTCAAG                         ATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGAG
genomic: AATGGAGAACAACAACAACAACCACAACCTCATCGTCCCTAATCCTCAAGgttctttttt ... gttctttcagATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGAT
EST: gi|19270301|gb|BM886557.1|BM886557
EST:     AATGGAGAACAACAACAACAACCACAACCTCATCGTCCCTAATCCTCAAG                         ATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGAT
genomic: AATGGAGAACAACAACAACAACCACAACCTCATCGTCCCTAATCCTCAAGgttctttttt ... gttctttcagATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcagtttcaacttatgttatgctgttcacacttttatttgtgatgttctttcagATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGATCTTATCCGGAGCGTCCAGGGGAGCCGGATTGTTCATATTACATGAGAAC
                                            tgttctttc  CT-rich tract
 acttttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattttgtagaccaagtcagccattgtgtacattgatgatgtgatttcagtttcaacttatgttatgctgttcacacttttatttgtgatgttctttcagATTCACTGTGGATGATGAATTTGAGGACTGGGGAAACAATGGATTCTGGATCTTATCCGGAGCGTCCAGGGGAGCCGGATTGTTCATATTACATGAGAAC

- - - - - - - - tcagcca
- - - - - - - - - - - - tgtgtac
- - - - - - - - - - - - - - - - - gatgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgtt