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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaaatttgtacctgtcaaaacacagtttgatatttatggatttttttttcagtcacatcatttttctgaagcataaaagtattctctaaaacatacagGATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTTCAGAAAAAATTCAAGATCAGTAAAGTCTTCAATTCTTCATTTTCAG

Basic information

species Glycine max
transcript GLYMA04G12500.1
intron # 3
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|209700264|gb|BW664490.1|BW664490
EST:     AATACAAGAATTATGAAAATATCCCTGGTTCAGGGGACAAGTCGGGGAAG                         GATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTTCAGAAAAAAT
genomic: AATACAAGAATTATGAAAATATCCCTGGTTCAGGGGACAAGTCGGGGAAGgtaacaaatt ... aaacatacagGATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTTCAGAAAAAAT
EST: gi|15661728|gb|BI699099.1|BI699099
EST:     AATACAAGAATTATGAAAATATCCCTGGTTCAGGGGACAAGTCGGGGAAG                         GATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTTCAGAAAAAAT
genomic: AATACAAGAATTATGAAAATATCCCTGGTTCAGGGGACAAGTCGGGGAAGgtaacaaatt ... aaacatacagGATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTTCAGAAAAAAT
EST: gi|192298146|gb|FG991666.1|FG991666
EST:     AATACAAGAATTATGAAAATATTCCTGGTTCAGGGGACAAGTCGGGGAAG                         GATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTCCAGAAAAAAT
genomic: AATACAAGAATTATGAAAATATCCCTGGTTCAGGGGACAAGTCGGGGAAGgtaacaaatt ... aaacatacagGATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTTCAGAAAAAAT
EST: gi|208114007|gb|GD909350.1|GD909350
EST:     CAGGGGACAAGTCGGGGAAG                         GATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTTC
genomic: CAGGGGACAAGTCGGGGAAGgtaacaaatt ... aaacatacagGATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttcagtcacatcatttttctgaagcataaaagtattctctaaaacatacagGATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTTCAGAAAAAATTCAAGATCAGTAAAGTCTTCAATTCTTCATTTTCAG
                                        ctctaaa  putative branch site (score: 3)
                             ataaaagtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacaaatttgtacctgtcaaaacacagtttgatatttatggatttttttttcagtcacatcatttttctgaagcataaaagtattctctaaaacatacagGATTGTAAGAATACCAAAAAAGGATACTCCTTTTATGACTTCAGAAAAAATTCAAGATCAGTAAAGTCTTCAATTCTTCATTTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA