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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcttgaataacaaggcattccctaattctgtttgcgtataaaattgtcttctttgcatgagttgctgtgatcaatctcttgttttacatcattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTGATGGGAGGGGAAGCATTAACATTGCTTTGATGTCTGCAAGCTCTTTTGT

Basic information

species Glycine max
transcript GLYMA19G42850.1
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|192331785|gb|FK024889.1|FK024889
EST:     CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCAT                         GTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
genomic: CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCATgtgtgtatct ... cattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
EST: gi|7284299|gb|AW596893.1|AW596893
EST:     CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCAT                         GTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
genomic: CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCATgtgtgtatct ... cattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
EST: gi|31561880|gb|CD487718.1|CD487718
EST:     CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCAT                         GTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
genomic: CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCATgtgtgtatct ... cattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
EST: gi|22525870|gb|BU084681.1|BU084681
EST:     CTTGGGAATTCCTTGTGCAGCTTCTGCGGATATATCCAACCCTCCTGCAT                         GTTCATTTGGGGTCCGTATAAAAGCT
genomic: CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCATgtgtgtatct ... cattgagcagGTTCATTTGTGGTCCGTATAAAAGCT
EST: gi|193644534|gb|FK587284.1|FK587284
EST:     CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCAT                         GTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
genomic: CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCATgtgtgtatct ... cattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
EST: gi|308222656|gb|HO760571.1|HO760571
EST:     CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCAT                         GTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
genomic: CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCATgtgtgtatct ... cattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
EST: gi|193720851|gb|FK659015.1|FK659015
EST:     CAGTTTCTGCGGATATATCAAACCTTCCTGCAT                         GTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
genomic: CAGTTTCTGCGGATATATCAAACCTTCCTGCATgtgtgtatct ... cattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
EST: gi|192297826|gb|FG988324.1|FG988324
EST:     CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCAT                         GTTCATTTGTGGTCCGTATAAAAGCTTTGAAGGGTTCATAGCTGTATTACT
genomic: CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCATgtgtgtatct ... cattgagcagGTTCATTTGTGGTCCGTATAAAAGCTT-GAAGGGTTCATAGCTGTATTACT
EST: gi|24136644|gb|BU927154.1|BU927154
EST:     CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCAT                         GTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
genomic: CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCATgtgtgtatct ... cattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
EST: gi|51335698|gb|CO979564.1|CO979564
EST:     CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCAT                         GTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG
genomic: CTTGGGAATTCCTTGTGCAGTTTCTGCGGATATATCAAACCTTCCTGCATgtgtgtatct ... cattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcttctttgcatgagttgctgtgatcaatctcttgttttacatcattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTGATGGGAGGGGAAGCATTAACATTGCTTTGATGTCTGCAAGCTCTTTTGT
                                  ttgtttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atcttgaataacaaggcattccctaattctgtttgcgtataaaattgtcttctttgcatgagttgctgtgatcaatctcttgttttacatcattgagcagGTTCATTTGTGGTCCGTATAAAAGCTTGAAGGGTTCATAGCTGTATTACTGATGGGAGGGGAAGCATTAACATTGCTTTGATGTCTGCAAGCTCTTTTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - -gaataac
- - - - - - - - cattccc
- - - - - - - - - - - - - - -tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatctc