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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtattttttttttccttttgagtattgactcattcaaaaaatcaacatgcattgtgattacacaaattttctgacaatggatgacaatttctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTACATTTCCTGAAGTAAACAACCTCAGTTGGGATTCTCATGAATCCCATAAA

Basic information

species Glycine max
transcript GLYMA07G05530.1
intron # 7
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|254344404|gb|GR855382.1|GR855382
EST:     ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTG                         GTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
genomic: ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTGgtgagttcag ... ctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
EST: gi|17021964|gb|BM092998.1|BM092998
EST:     ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTG                         GTATAGTAATAGTA
genomic: ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTGgtgagttcag ... ctatatgcagGTATAGTAATAGTA
EST: gi|208050092|gb|GD849403.1|GD849403
EST:     TTCAAATACTTCTGCCTTTTCTTG                         GTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
genomic: TTCAAATACTTCTGCCTTTTCTTGgtgagttcag ... ctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
EST: gi|19271317|gb|BM887573.1|BM887573
EST:     ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTG                         GTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
genomic: ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTGgtgagttcag ... ctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
EST: gi|151398241|gb|EV268119.1|EV268119
EST:     ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTG                         GTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
genomic: ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTGgtgagttcag ... ctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
EST: gi|151400196|gb|EV270010.1|EV270010
EST:     ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTG                         GTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
genomic: ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTGgtgagttcag ... ctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
EST: gi|15815123|gb|BI787398.1|BI787398
EST:     ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTG                         GTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
genomic: ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTGgtgagttcag ... ctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
EST: gi|20498506|gb|BQ273436.1|BQ273436
EST:     ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTG                         GTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
genomic: ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTGgtgagttcag ... ctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
EST: gi|20498782|gb|BQ273712.1|BQ273712
EST:     ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTG                         GTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
genomic: ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTGgtgagttcag ... ctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTAC
EST: gi|208110058|gb|GD906306.1|GD906306
EST:     ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTG                         GTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATC
genomic: ACTGAGGAATCTCAAAGATTGAACCATTCAAATACTTCTGCCTTTTCTTGgtgagttcag ... ctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgcattgtgattacacaaattttctgacaatggatgacaatttctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTACATTTCCTGAAGTAAACAACCTCAGTTGGGATTCTCATGAATCCCATAAA
                       ttctgac  putative branch site (score: 2)
                                          tttctat  putative PPT
           attacacaaatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattttttttttccttttgagtattgactcattcaaaaaatcaacatgcattgtgattacacaaattttctgacaatggatgacaatttctatatgcagGTATAGTAATAGTAAATTGTTGCAGCCTCATTTTTCAACACCATCGATTACATTTCCTGAAGTAAACAACCTCAGTTGGGATTCTCATGAATCCCATAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG