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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtacttactaattactatctaattcaattgatcatattattatgatgaaattaaagaaagtgatgtaagaaaactttaactaattgtctcagCTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACAGCAAGTTTAGACGAAGCCAATTCAGATTTACCAGCTCCCTTTTTGGATC

Basic information

species Glycine max
transcript GLYMA20G38590.1
intron # 2
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|8284065|gb|BE021624.1|BE021624
EST:     TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCT                         CTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
genomic: TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCTgtaagtactt ... attgtctcagCTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
EST: gi|192327335|gb|FK017782.1|FK017782
EST:     TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCT                         CTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
genomic: TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCTgtaagtactt ... attgtctcagCTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
EST: gi|192324513|gb|FK018699.1|FK018699
EST:     TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCT                         CTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGGTTCAACCACA
genomic: TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCTgtaagtactt ... attgtctcagCTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
EST: gi|16345381|gb|BI970976.1|BI970976
EST:     TCTTGTGCTGACANNNTNGCCGTTGCNGCGAGAGACGCTGTTGTTGCT                         CTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
genomic: TCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCTgtaagtactt ... attgtctcagCTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
EST: gi|8283080|gb|BE020641.1|BE020641
EST:     TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCT                         CTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
genomic: TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCTgtaagtactt ... attgtctcagCTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
EST: gi|41145684|gb|CK605895.1|CK605895
EST:     TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCT                         CTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
genomic: TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCTgtaagtactt ... attgtctcagCTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
EST: gi|33389957|gb|CA853164.1|CA853164
EST:     TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCT                         CTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA
genomic: TCTCTTGTGCTGACATCTTAGCCGTTGCTGCGAGAGACGCTGTTGTTGCTgtaagtactt ... attgtctcagCTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattatgatgaaattaaagaaagtgatgtaagaaaactttaactaattgtctcagCTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACAGCAAGTTTAGACGAAGCCAATTCAGATTTACCAGCTCCCTTTTTGGATC
                                        aactaat  putative branch site (score: 2)
                                              ttgtctc  CT-rich tract
                                aaaactttaactaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtacttactaattactatctaattcaattgatcatattattatgatgaaattaaagaaagtgatgtaagaaaactttaactaattgtctcagCTTGGTGGACAAAAATGGGAAGTACAAGTAGGCAGAAGAGATTCAACCACAGCAAGTTTAGACGAAGCCAATTCAGATTTACCAGCTCCCTTTTTGGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC