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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgattattgaataacacctatggaccatttcttcagcaatccaatccaccaaggtactgttttaaatggttgctcatgtggtttaactctattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGCTTTTATAATGACACAACACAAATTTTCACGTTACTTGATTGGACTTCTC

Basic information

species Glycine max
transcript GLYMA20G33080.1
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|27426899|gb|CA938419.1|CA938419
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|15288026|gb|BI471917.1|BI471917
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|8403681|gb|BE059377.1|BE059377
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|15661618|gb|BI698989.1|BI698989
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTTC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|6964563|gb|AW433256.1|AW433256
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTACTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|6227678|gb|AW156277.1|AW156277
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCATTGCAATCAAACTTCAGTGATATAAGACGACTTC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|51336348|gb|CO980214.1|CO980214
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|13311756|gb|BG405407.1|BG405407
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTTC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|192310210|gb|FK000690.1|FK000690
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTTTCTGCTTTGCAATCAAACTTCAGTGATATACGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|21256352|gb|BQ453240.1|BQ453240
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTTC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|51344360|gb|CO985093.1|CO985093
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|57575389|gb|CX548364.1|CX548364
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|209716666|gb|BW654299.1|BW654299
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTTC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|120532018|gb|EH260151.1|EH260151
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|19346936|gb|BM891747.1|BM891747
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
EST: gi|58023434|gb|CX710175.1|CX710175
EST:     GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAG                         GTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC
genomic: GAGCTTAACATTGTCTGCTGATCATCGTGTTTTTGATGGCAAAGTTGGAGgtatgtgtta ... tattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccaccaaggtactgttttaaatggttgctcatgtggtttaactctattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGCTTTTATAATGACACAACACAAATTTTCACGTTACTTGATTGGACTTCTC
                                    gtttaac  putative branch site (score: 3)
                                          ctctatttt  CT-rich tract
                                     tttaactctatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgattattgaataacacctatggaccatttcttcagcaatccaatccaccaaggtactgttttaaatggttgctcatgtggtttaactctattttgcagGTGCATTTCTCTCTGCTTTGCAATCAAACTTCAGTGATATAAGACGACTGCTTTTATAATGACACAACACAAATTTTCACGTTACTTGATTGGACTTCTC

- - - - -gaataac
- - - - - - - - - - - - -ccatttc
- - - - - - - - - - - - - - - - - - - - -ccaatcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgtg