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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cactagttagcatttatatgattaataatttgttgcttacttcaacctttttttttattcatattcttagtaccaacttgttttgtgtgtaattttgcagAGAAAAACAACCACTGAAGGTTCTGGGTGAAATGTCATCAGCTTAATCAGCCTCCATTCTTTCCAAATGTACTATGCAATGCCCCCTTAACCCCTTAAAT

Basic information

species Glycine max
transcript GLYMA08G18430.2
intron # 2
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|254347537|gb|GR853786.1|GR853786
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         AGAAAAACAACCACTGAAGGTTCTGGGTGAAATGTCATCAGCTTAATCAGC
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcagAGAAAAACAACCACTGAAGGTTCTGGGTGAAATGTCATCAGCTTAATCAGC
EST: gi|192324655|gb|FK016486.1|FK016486
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         G
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcag-
EST: gi|192324655|gb|FK016486.1|FK016486
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         G
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcag-
EST: gi|192324655|gb|FK016486.1|FK016486
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         G
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcag-
EST: gi|254347538|gb|GR853787.1|GR853787
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         AGAAAAACAACCACTGAAGGTTCTGGGTGAAATGTCATCAGCTTAATCAGC
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcagAGAAAAACAACCACTGAAGGTTCTGGGTGAAATGTCATCAGCTTAATCAGC
EST: gi|16996562|gb|BM085934.1|BM085934
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         G
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcag-
EST: gi|16996562|gb|BM085934.1|BM085934
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         G
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcag-
EST: gi|16996562|gb|BM085934.1|BM085934
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         G
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcag-
EST: gi|6133964|gb|AW132357.1|AW132357
EST:     GTCTTTTGGCACCACTCATG                         AGAAAAACAACCACTGAAGGTTCTGGTTGAAATTTCATCAGCTTAATCAGC
genomic: GTCTTTTGGCACCACTCATGgtataggcat ... aattttgcagAGAAAAACAACCACTGAAGGTTCTGGGTGAAATGTCATCAGCTTAATCAGC
EST: gi|20812465|gb|BQ296943.1|BQ296943
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         AGAAAAACAACCACTGAAGGTTCTGGGTGAAATGTCATCAGCTTAATCAGC
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcagAGAAAAACAACCACTGAAGGTTCTGGGTGAAATGTCATCAGCTTAATCAGC
EST: gi|58016623|gb|CX703365.1|CX703365
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         G
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcag-
EST: gi|58016623|gb|CX703365.1|CX703365
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         G
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcag-
EST: gi|58016623|gb|CX703365.1|CX703365
EST:     AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATG                         G
genomic: AGGGCGGATTGATAATATAGATCGTATGCTGTCTTTTGGCACCACTCATGgtataggcat ... aattttgcag-
EST: gi|151412461|gb|EV282273.1|EV282273
EST:     GGCGGATTTGATAATATAGAACGTATGCTGTCTTTTTGGCACCACTCATG                         AGAAAAACAACCACTGAAGGTTCTGAGGTGAAATGTCATCAGCTTAATCAG
genomic: GGCGGATT-GATAATATAGATCGTATGCTGTCTTTT-GGCACCACTCATGgtataggcat ... aattttgcagAGAAAAACAACCACTGAAGGTTCTG-GGTGAAATGTCATCAGCTTAATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctttttttttattcatattcttagtaccaacttgttttgtgtgtaattttgcagAGAAAAACAACCACTGAAGGTTCTGGGTGAAATGTCATCAGCTTAATCAGCCTCCATTCTTTCCAAATGTACTATGCAATGCCCCCTTAACCCCTTAAAT
     ttttttattcatattc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cactagttagcatttatatgattaataatttgttgcttacttcaacctttttttttattcatattcttagtaccaacttgttttgtgtgtaattttgcagAGAAAAACAACCACTGAAGGTTCTGGGTGAAATGTCATCAGCTTAATCAGCCTCCATTCTTTCCAAATGTACTATGCAATGCCCCCTTAACCCCTTAAAT

- - - - - - - - - - - - - - - tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -accaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgt