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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agagaagcaaaactgatgtactagctggtaattcttatacacaattggttgcataatcttttgaatttacattcatgtatctactacttggtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG

Basic information

species Glycine max
transcript GLYMA05G37720.1
intron # 6
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|9984939|gb|BE659047.1|BE659047
EST:     TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATG                         CCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
genomic: TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATGgtgagtatct ... gtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
EST: gi|8285612|gb|BE023171.1|BE023171
EST:     TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATG                         CCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
genomic: TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATGgtgagtatct ... gtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
EST: gi|254341908|gb|GR853045.1|GR853045
EST:     TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATG                         CCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
genomic: TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATGgtgagtatct ... gtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
EST: gi|15813524|gb|BI785799.1|BI785799
EST:     TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATG                         CCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
genomic: TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATGgtgagtatct ... gtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
EST: gi|15814162|gb|BI786437.1|BI786437
EST:     CCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATG                         CCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
genomic: CCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATGgtgagtatct ... gtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
EST: gi|208281593|gb|GE078529.1|GE078529
EST:     TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATG                         CCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
genomic: TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATGgtgagtatct ... gtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
EST: gi|23725874|gb|BU760909.1|BU760909
EST:     TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATG                         CCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
genomic: TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATGgtgagtatct ... gtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
EST: gi|192308672|gb|FG999739.1|FG999739
EST:     TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATG                         CCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
genomic: TCCTGGATCAATTATTACAAATATTCTGCGATACCATGATTATATTAATGgtgagtatct ... gtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggttgcataatcttttgaatttacattcatgtatctactacttggtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG
       ataatcttttgaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agagaagcaaaactgatgtactagctggtaattcttatacacaattggttgcataatcttttgaatttacattcatgtatctactacttggtttgtgcagCCCTTGCTAACATGGTGGGCAAGTACTTCCTTAAAAATGTGCAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- -gaagcaaa
- - - - - -actgatg
- - - - - - - - - - - -gctggta
- - - - - - - - - - - - - - - - - - atacaca
- - - - - - - - - - - - - - - - - - - - - - - - -tgcataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctacttg