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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgattctctctctatatctatctatatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtattactcatgcagaaatctcagttcagttctaaatataaatctgcgcactttaatgggtttgcattatagtccaaggattggtaatctcttcctcactttgatatgaaatgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGCAGTGGTGACATTCGTCCCTTAAAGATGGATGATTTTAGATATGCACATG

Basic information

species Glycine max
transcript GLYMA10G02400.1
intron # 25
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|24135420|gb|BU925930.1|BU925930
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|192316676|gb|FK009361.1|FK009361
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|58019392|gb|CX706134.1|CX706134
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|21887507|gb|BQ740720.1|BQ740720
EST:     AATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: AATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|15814532|gb|BI786807.1|BI786807
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|26057754|gb|CA800668.1|CA800668
EST:     TCACAGCAGCTCACTGTCCAATACGATAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|192316471|gb|FK009296.1|FK009296
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|22933686|gb|BU550825.1|BU550825
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|192312529|gb|FK005001.1|FK005001
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|208255363|gb|GE054010.1|GE054010
EST:     TCACAGCAGCTCACTGTCCAATTCGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|37997295|gb|CF808884.1|CF808884
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|20811998|gb|BQ296476.1|BQ296476
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGA
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGA
EST: gi|192312514|gb|FK005000.1|FK005000
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
EST: gi|22929414|gb|BU546553.1|BU546553
EST:     TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAG                         GAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC
genomic: TCACAGCAGCTCACTGTCCAATACGAGAGATCTTGGAGAAGGAAAAGAAGgttagtgatt ... tgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatagtccaaggattggtaatctcttcctcactttgatatgaaatgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGCAGTGGTGACATTCGTCCCTTAAAGATGGATGATTTTAGATATGCACATG
                                             tgtctttc  CT-rich tract
                                     atatgaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtgattctctctctatatctatctatatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtattactcatgcagaaatctcagttcagttctaaatataaatctgcgcactttaatgggtttgcattatagtccaaggattggtaatctcttcctcactttgatatgaaatgtctttcagGAGAGAAGCTTAGCTTTGTCTGAGAGCAAACCTTTACCTGGATTGTGTGGCAGTGGTGACATTCGTCCCTTAAAGATGGATGATTTTAGATATGCACATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA