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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcactcccctttgactataggacaaaaggaccctttaagttcataatgtgcatgaaaataaaatgttgcacacattggttgtttgtgtgtatttatgccttgttgtttgtttcaagcagGTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGACAAAAACATGGCCACTATGTTTCACATCTTAAGGAGGACAAAGCGTGTCCCACTTGAAAACT

Basic information

species Glycine max
transcript GLYMA20G39130.1
intron # 4
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|193500294|gb|FK465323.1|FK465323
EST:     TGCCCAGAAACTGCAATCCTCGCCAAATTGCAACTACTAGACCTCTACAG                         GTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGACAAAAACATGGCC
genomic: TGCCCAGAAACTGCAATCCTCGCCAAATTGCAACTACTAGACCTCTACAGgtcactcccc ... tttcaagcagGTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGACAAAAACATGGCC
EST: gi|298182625|gb|HO031360.1|HO031360
EST:     TGCCCAGAAACCGCAATCCTCGCCAAATTGCAACTACTAGACCTCTACGG                         GTTGATGAGGCTGTTAC
genomic: TGCCCAGAAACTGCAATCCTCGCCAAATTGCAACTACTAGACCTCTACAGgtcactcccc ... tttcaagcagGTTGATGAGGCTGTTAC
EST: gi|151410305|gb|EV280120.1|EV280120
EST:     TGCCCAGAAACTGCAATCCTCGCCAAATTGCAACTACTAGACCTCTACAG                         GTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGACAAAAACATGGCC
genomic: TGCCCAGAAACTGCAATCCTCGCCAAATTGCAACTACTAGACCTCTACAGgtcactcccc ... tttcaagcagGTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGACAAAAACATGGCC
EST: gi|9819928|gb|BE555371.1|BE555371
EST:     TGCCCAGAAACTGCAATCCTCGCCAAATTGCAACTACTAGACCTCTACAG                         GTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGACAAAAACATGGCC
genomic: TGCCCAGAAACTGCAATCCTCGCCAAATTGCAACTACTAGACCTCTACAGgtcactcccc ... tttcaagcagGTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGACAAAAACATGGCC
EST: gi|192326780|gb|FK018907.1|FK018907
EST:     TGCCCAGAAACTGCAATCCTCGCCAAATTGCAACTACTAGACCTCTACAG                         GTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGAC
genomic: TGCCCAGAAACTGCAATCCTCGCCAAATTGCAACTACTAGACCTCTACAGgtcactcccc ... tttcaagcagGTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgcacacattggttgtttgtgtgtatttatgccttgttgtttgtttcaagcagGTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGACAAAAACATGGCCACTATGTTTCACATCTTAAGGAGGACAAAGCGTGTCCCACTTGAAAACT
                                         tttgtttc  CT-rich tract
                       tgtatttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcactcccctttgactataggacaaaaggaccctttaagttcataatgtgcatgaaaataaaatgttgcacacattggttgtttgtgtgtatttatgccttgttgtttgtttcaagcagGTTGATGAGGCTGTTACTGAGGAAAATACTGATACCGACAAAAACATGGCCACTATGTTTCACATCTTAAGGAGGACAAAGCGTGTCCCACTTGAAAACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA