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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagttttcattcacataacatacacattaacatgcctctctgcctaatatatatatatatatatatatatatatatatatatatatatatatatatatatatgctctcataaatacttttttttattctttttcccatttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGAGGAACAGCGGACAATCTTG

Basic information

species Glycine max
transcript GLYMA06G46640.1
intron # 3
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|18040777|gb|BM309071.1|BM309071
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCG
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCG
EST: gi|192299072|gb|FG992848.1|FG992848
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|298172884|gb|HO019868.1|HO019868
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCGTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
EST: gi|6072102|gb|AW101421.1|AW101421
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTC
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTC
EST: gi|298176866|gb|HO026873.1|HO026873
EST:     CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAAT                         CCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA
genomic: CCATGAGAGATGCTCGCAAGCGTAGATTTCGCAGGGAGCCTGATCTTAATgtatagtttt ... catttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatatatatgctctcataaatacttttttttattctttttcccatttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGAGGAACAGCGGACAATCTTG
                       tacttttttttattct  CT-rich tract
                  ataaatactttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatagttttcattcacataacatacacattaacatgcctctctgcctaatatatatatatatatatatatatatatatatatatatatatatatatatatatatgctctcataaatacttttttttattctttttcccatttttcagCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATGGCTGGAGGAACAGCGGACAATCTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA