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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctacatcttgagtgtattttaagaaaaccaaaggtatacttgcataatagttctgagcttggcaatctcttgctcactttgacatgaaatgtatttcagGAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGTAGTACTGACGTTCGTCCCTTAAAGATGGAGGATTTTAGATATGCACATG

Basic information

species Glycine max
transcript GLYMA02G17400.1
intron # 22
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|13312558|gb|BG406209.1|BG406209
EST:     TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
genomic: TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAGgttagtgata ... tgtatttcagGAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
EST: gi|7686624|gb|AW757281.1|AW757281
EST:     TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
genomic: TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAGgttagtgata ... tgtatttcagGAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
EST: gi|120497078|gb|EH225245.1|EH225245
EST:     TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTCGTGTAGT
genomic: TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAGgttagtgata ... tgtatttcagGAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
EST: gi|8826443|gb|BE210173.1|BE210173
EST:     TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
genomic: TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAGgttagtgata ... tgtatttcagGAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
EST: gi|13788848|gb|BG651439.1|BG651439
EST:     TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
genomic: TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAGgttagtgata ... tgtatttcagGAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
EST: gi|254341441|gb|GR850654.1|GR850654
EST:     TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
genomic: TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAGgttagtgata ... tgtatttcagGAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT
EST: gi|120496527|gb|EH224694.1|EH224694
EST:     TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTCGTGTAGT
genomic: TCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAGGAAAAGAAGgttagtgata ... tgtatttcagGAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatagttctgagcttggcaatctcttgctcactttgacatgaaatgtatttcagGAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGTAGTACTGACGTTCGTCCCTTAAAGATGGAGGATTTTAGATATGCACATG
                                          aaatgtattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gctacatcttgagtgtattttaagaaaaccaaaggtatacttgcataatagttctgagcttggcaatctcttgctcactttgacatgaaatgtatttcagGAGAGAAGCTTAGCATTGGCTGAGAACCAACCTTTACCTCAGTTGTGTAGTAGTACTGACGTTCGTCCCTTAAAGATGGAGGATTTTAGATATGCACATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - -tgagtgt
- - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - -tgcataa
- - - - - - - - - - - - - - - - - - - - - - - - - -ttctgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgaaa