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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgagcttgttctggctatattcgtcctgggtagcgtagatcttatctgatagtttggtagtatttaacaaactacaaacatttttttaatcatgtgcagCTGACAGAAATCTCTCTGGGTATGAACCAAAAGACCATGCGATCAAAGCATTCCAGGAGCATGGAAATCAAAAAGTGCATGAACTTCTAGACCAATACAT

Basic information

species Glycine max
transcript GLYMA20G30030.1
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|51337278|gb|CO981144.1|CO981144
EST:     AGAAATCTGCCTTCTTCATATTCACCAACCTCACTCTCTCAATTCATTCT                         CTGACAGAAATCTCTCTGGGTATGAACCAAAAGACCATGCGATCAAAGCAT
genomic: AGAAATCTGCCTTCTTCATATTCACCAACCTCACTCTCTCAATTCATTCTgtgagtttct ... tcatgtgcagCTGACAGAAATCTCTCTGGGTATGAACCAAAAGACCATGCGATCAAAGCAT
EST: gi|22525343|gb|BU084154.1|BU084154
EST:     AGAAATCTGCCTTCTTCATATTCACCAACCTCACTCTCTCAATTCATTCT                         CTGACAGAAATCTCTCTGGGTATGAACCAAAAGACCATGCGATCAAAGCAT
genomic: AGAAATCTGCCTTCTTCATATTCACCAACCTCACTCTCTCAATTCATTCTgtgagtttct ... tcatgtgcagCTGACAGAAATCTCTCTGGGTATGAACCAAAAGACCATGCGATCAAAGCAT
EST: gi|15287013|gb|BI470904.1|BI470904
EST:     AGAAATCTGCCTTCTTCATATTCACCAACCTCACTCTCTCAATTCATTCT                         CTGACAGAAATCTCTCTGGGTATGAACCAAAAGACCATGCGATCAAAGCAT
genomic: AGAAATCTGCCTTCTTCATATTCACCAACCTCACTCTCTCAATTCATTCTgtgagtttct ... tcatgtgcagCTGACAGAAATCTCTCTGGGTATGAACCAAAAGACCATGCGATCAAAGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgatagtttggtagtatttaacaaactacaaacatttttttaatcatgtgcagCTGACAGAAATCTCTCTGGGTATGAACCAAAAGACCATGCGATCAAAGCATTCCAGGAGCATGGAAATCAAAAAGTGCATGAACTTCTAGACCAATACAT
                                       ttttaat  putative branch site (score: 3)
                tatttaacaaactaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgagcttgttctggctatattcgtcctgggtagcgtagatcttatctgatagtttggtagtatttaacaaactacaaacatttttttaatcatgtgcagCTGACAGAAATCTCTCTGGGTATGAACCAAAAGACCATGCGATCAAAGCATTCCAGGAGCATGGAAATCAAAAAGTGCATGAACTTCTAGACCAATACAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- gagcttg
- - - - -ttctggc
- - - - - - - - - - - - - - - - - - - - - - - ctgatag