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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcactctattatttgaattctatgatagtttattattgattttattgttccaaattgatgttgtttctgtttcataattgtgttccattttgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG

Basic information

species Glycine max
transcript GLYMA06G45160.1
intron # 8
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|162286177|gb|FC456625.1|FC456625
EST:     GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG                         GACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
genomic: GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
EST: gi|31474417|gb|CD416445.1|CD416445
EST:     GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG                         GACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
genomic: GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
EST: gi|13181293|gb|BG352633.1|BG352633
EST:     GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG                         GACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATGTTGCA
genomic: GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATGTTGCA
EST: gi|22928614|gb|BU545753.1|BU545753
EST:     GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTNNATCGTGCTATGAG                         GACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
genomic: GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
EST: gi|9899156|gb|BE608183.1|BE608183
EST:     GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG                         GACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
genomic: GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
EST: gi|192320764|gb|FK013854.1|FK013854
EST:     GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG                         GACTGACAGTGTTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
genomic: GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
EST: gi|209700002|gb|BW661218.1|BW661218
EST:     GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG                         GACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
genomic: GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
EST: gi|21887940|gb|BQ741153.1|BQ741153
EST:     GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG                         GACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
genomic: GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
EST: gi|209723674|gb|BW662569.1|BW662569
EST:     GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG                         GACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
genomic: GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
EST: gi|15284739|gb|BI468630.1|BI468630
EST:     GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG                         GACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
genomic: GCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
EST: gi|31459116|gb|CD401144.1|CD401144
EST:     TCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTGATCGTGCTATGAG                         GACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
genomic: TCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAGgtagtgttcg ... tgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttccaaattgatgttgtttctgtttcataattgtgttccattttgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG
       aattgat  putative branch site (score: 4)
                                     ttccatttt  putative PPT
                        tttcataatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcactctattatttgaattctatgatagtttattattgattttattgttccaaattgatgttgtttctgtttcataattgtgttccattttgtgtttcagGACTGACAGTGCTCTGAAATTTGGCTGGTTCTTCTTGCTTTACATG

-cactcta
- - - - - - -tgaattc
- - - - - - - - - - - - - - - - - - - - - - - - -ccaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgttc