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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gacgatttataggagcagttgctaaaacaagaaattgagagctattcctgtagttatgtgaacctcaccgtattctatattattttgtatttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGCCACAAATTTGTAGGGTGTCCCATGCCTTGTGGTGTGCAGATAACAAGAT

Basic information

species Glycine max
transcript GLYMA08G19360.1
intron # 5
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|20449110|gb|BQ253234.1|BQ253234
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTTCAAAAGTTACTTTT
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTT
EST: gi|22931125|gb|BU548264.1|BU548264
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTATTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|192311121|gb|FK004460.1|FK004460
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|27446086|gb|CA953209.1|CA953209
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|13252285|gb|BG363188.1|BG363188
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|298192239|gb|HO036321.1|HO036321
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|298192247|gb|HO036329.1|HO036329
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|9984124|gb|BE658176.1|BE658176
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTNNNAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|16106370|gb|BI894110.1|BI894110
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|23731905|gb|BU764099.1|BU764099
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|13563443|gb|BG551589.1|BG551589
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|298188779|gb|HO035472.1|HO035472
EST:     GGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: GGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|151407642|gb|EV277457.1|EV277457
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|27426440|gb|CA937960.1|CA937960
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
EST: gi|192311122|gb|FK004461.1|FK004461
EST:     TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGA                         GCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC
genomic: TCCATTGTGATGGGGCTTTGTTTGGTCTCATGATGCCTTTCGTGAAACGAgtatgtgcaa ... ttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctgtagttatgtgaacctcaccgtattctatattattttgtatttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGCCACAAATTTGTAGGGTGTCCCATGCCTTGTGGTGTGCAGATAACAAGAT
                acctcac  putative branch site (score: 3)
                                            tttgctttc  putative PPT
                         tattctatattatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gacgatttataggagcagttgctaaaacaagaaattgagagctattcctgtagttatgtgaacctcaccgtattctatattattttgtatttgctttcagGCTCCAAAAGTTACTTTTAAGAAGCCTGTTGGCAGTGTTAGTGTTTCTGGCCACAAATTTGTAGGGTGTCCCATGCCTTGTGGTGTGCAGATAACAAGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - -cagttgc
- - - - - - - - - - - -aaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctcacc