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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attacaaggatttacgtaagagtgcaattttaatgtgaagtttctgctgaaaaaaggaacggttgatgtattaacatctatgttttgcctggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATAAAATGAGTTAGATCTATAATGGATGTACTTAAGATCTTGCTTTTCTAAT

Basic information

species Glycine max
transcript GLYMA04G01140.1
intron # 4
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|151404297|gb|EV274107.1|EV274107
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtattttaaa ... ggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
EST: gi|298184224|gb|HO029437.1|HO029437
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtattttaaa ... ggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
EST: gi|193652089|gb|FK597303.1|FK597303
EST:     AAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
genomic: AAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtattttaaa ... ggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
EST: gi|151408055|gb|EV277863.1|EV277863
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtattttaaa ... ggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
EST: gi|27427183|gb|CA938703.1|CA938703
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtattttaaa ... ggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
EST: gi|254330184|gb|GR839737.1|GR839737
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtattttaaa ... ggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
EST: gi|254316702|gb|GR828239.1|GR828239
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTATGTAATAGTGTGATAGTATATAAAGCATA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtattttaaa ... ggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
EST: gi|254330185|gb|GR839738.1|GR839738
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtattttaaa ... ggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
EST: gi|15285488|gb|BI469379.1|BI469379
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTANGGTA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtattttaaa ... ggaattgcagGTGGATACTAAACGCCGTCGTA-GGTA
EST: gi|254316701|gb|GR828238.1|GR828238
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtattttaaa ... ggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgaaaaaaggaacggttgatgtattaacatctatgttttgcctggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATAAAATGAGTTAGATCTATAATGGATGTACTTAAGATCTTGCTTTTCTAAT
                       tattaac  putative branch site (score: 1)
                    atgtattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attacaaggatttacgtaagagtgcaattttaatgtgaagtttctgctgaaaaaaggaacggttgatgtattaacatctatgttttgcctggaattgcagGTGGATACTAAACGCCGTCGTAGGTAATAGTGTGATAGTATATAAAGCATAAAATGAGTTAGATCTATAATGGATGTACTTAAGATCTTGCTTTTCTAAT

- - - - - - - - - -gagtgca
- - - - - - - - - - - - - - - - - - - - - - - - gaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttttgcc