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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattaattggtatgtataacctatcttaactgtgattgccctttgtgatagataaccacttgcaaagggttgattttttgtagtgttgatttattttcagGCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAGCAAAAATCCATCCATTGTTGCCACCATAGTGAAGTGTCCTTCTTCTTTA

Basic information

species Glycine max
transcript GLYMA12G09500.1
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|16278083|gb|BI942717.1|BI942717
EST:     CTTCGTTTTCCCCGCTTTCAACACCGCTCATCTTCTCTTCTCTTTTCTCT                         GCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAG
genomic: CTTCGTTTTCCCCGCTTTCAACACCGCTCATCTTCTCTTCTCTTTTCTCTgtaagcccct ... ttattttcagGCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAG
EST: gi|16277591|gb|BI942460.1|BI942460
EST:     TTCCCCGCTTTCAACACCGCTCATCTTCTCTTCTCTTTTCTCT                         GCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAG
genomic: TTCCCCGCTTTCAACACCGCTCATCTTCTCTTCTCTTTTCTCTgtaagcccct ... ttattttcagGCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAG
EST: gi|19937938|gb|BQ081485.1|BQ081485
EST:     CTCTTTTCTCT                         GCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAG
genomic: CTCTTTTCTCTgtaagcccct ... ttattttcagGCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAG
EST: gi|21601728|gb|BQ612059.1|BQ612059
EST:     CTTCGTTTTCCCCGCTTTCAACACCGCTCATCTTCTCTTCTCTTTTCTCT                         GCTAATCATGGCAACCTTGTCTACTAATTATTGCACATTACAAACTGCAAG
genomic: CTTCGTTTTCCCCGCTTTCAACACCGCTCATCTTCTCTTCTCTTTTCTCTgtaagcccct ... ttattttcagGCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAG
EST: gi|16277021|gb|BI942162.1|BI942162
EST:     CTTCGTTTTCCCCGCTTTCAACACCGCTCATCTTCTCTTCTCTTTTCTCT                         GCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAG
genomic: CTTCGTTTTCCCCGCTTTCAACACCGCTCATCTTCTCTTCTCTTTTCTCTgtaagcccct ... ttattttcagGCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatagataaccacttgcaaagggttgattttttgtagtgttgatttattttcagGCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAGCAAAAATCCATCCATTGTTGCCACCATAGTGAAGTGTCCTTCTTCTTTA
                                            tttattttc  CT-rich tract
                                      tgttgatttatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattaattggtatgtataacctatcttaactgtgattgccctttgtgatagataaccacttgcaaagggttgattttttgtagtgttgatttattttcagGCTAATCATGGCAACCTTGTCTACTAATCATTGCACATTACAAACTGCAAGCAAAAATCCATCCATTGTTGCCACCATAGTGAAGTGTCCTTCTTCTTTA

- - - - ggtatgt
- - - - - - - - - - - - - -aactgtg
- - - - - - - - - - - - - - - - - - tgccctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - cacttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgat