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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaaacttgttctcatttagaatagctaaaagggcaccgtaatagtaaacaactttttgcagcaattcctttttcagtccttgccaaaaaaaattgtgcatttattcaggttttcccattttcccttaatttgtttgtcagcattttaagtggtttatgaataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGATGGAGACTTCCTGGTTGCCTTCTCCAATGGACCTAATGAGGCCAATGAT

Basic information

species Glycine max
transcript GLYMA09G35980.1
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|208283900|gb|GE089012.1|GE089012
EST:     GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATG                         TTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAG
genomic: GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATGgtataaaact ... ataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAG
EST: gi|15815311|gb|BI787586.1|BI787586
EST:     GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATG                         TTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
genomic: GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATGgtataaaact ... ataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
EST: gi|193400838|gb|FK368759.1|FK368759
EST:     GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATG                         TTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
genomic: GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATGgtataaaact ... ataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
EST: gi|24206180|gb|BU965433.1|BU965433
EST:     GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATG                         TTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
genomic: GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATGgtataaaact ... ataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
EST: gi|10237801|gb|BE806689.1|BE806689
EST:     GGCAATGGCAAGCAGAACTCTAGTCATGACGATTGTGATTTGCAAGAATG                         TTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
genomic: GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATGgtataaaact ... ataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
EST: gi|208314144|gb|GE117736.1|GE117736
EST:     GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATG                         TTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
genomic: GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATGgtataaaact ... ataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
EST: gi|193692442|gb|FK627617.1|FK627617
EST:     GGCAATGGCAAGTAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATG                         TTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAA
genomic: GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATGgtataaaact ... ataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAA
EST: gi|14991995|gb|BI317668.1|BI317668
EST:     GGCAATGGCAAGCATAGCTCTAGTCATGACGATTGTGATTTGCAAGAATG                         TTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
genomic: GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATGgtataaaact ... ataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGA
EST: gi|193619469|gb|FK571337.1|FK571337
EST:     GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTCGCAAGAATG                         TTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACA
genomic: GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATGgtataaaact ... ataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACA
EST: gi|207798278|gb|GD771600.1|GD771600
EST:     GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATG                         TTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAAACAAAAG
genomic: GGCAATGGCAAGCAGAGCTCTAGTCATGACGATTGTGATTTGCAAGAATGgtataaaact ... ataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAA-CAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccattttcccttaatttgtttgtcagcattttaagtggtttatgaataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGATGGAGACTTCCTGGTTGCCTTCTCCAATGGACCTAATGAGGCCAATGAT
        ccttaat  putative branch site (score: 4)
                                      tttatgaataaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataaaacttgttctcatttagaatagctaaaagggcaccgtaatagtaaacaactttttgcagcaattcctttttcagtccttgccaaaaaaaattgtgcatttattcaggttttcccattttcccttaatttgtttgtcagcattttaagtggtttatgaataaatgcagTTTGGAGCATAATCTCCCTGATAGCCCTTTTGCTTCCCCAACAAAAGGTGATGGAGACTTCCTGGTTGCCTTCTCCAATGGACCTAATGAGGCCAATGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA