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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggttataccctccctcttatacttgtttaaatctaacacattttcttcaagacatagtactaacttccatgcattttcccaactggtaGTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAATTTCATTTCATTATTGAGATATAAAAGAGATGGCAACTATGGATGTTAT

Basic information

species Glycine max
transcript GLYMA18G06300.1
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|31465914|gb|CD407942.1|CD407942
EST:     ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACCAACTTGCACAA                         GTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
genomic: ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAAggttataccc ... ccaactggtaGTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
EST: gi|209704846|gb|BW661676.1|BW661676
EST:     ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAA                         GTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
genomic: ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAAggttataccc ... ccaactggtaGTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
EST: gi|58023446|gb|CX710187.1|CX710187
EST:     ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAA                         GTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
genomic: ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAAggttataccc ... ccaactggtaGTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
EST: gi|192332715|gb|FK025372.1|FK025372
EST:     ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAA                         GTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
genomic: ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAAggttataccc ... ccaactggtaGTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
EST: gi|209727248|gb|BW663309.1|BW663309
EST:     ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAA                         GTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
genomic: ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAAggttataccc ... ccaactggtaGTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
EST: gi|58025042|gb|CX711783.1|CX711783
EST:     ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAA                         GTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
genomic: ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAAggttataccc ... ccaactggtaGTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAA
EST: gi|192296716|gb|FG991284.1|FG991284
EST:     ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAA                         GTGCGACAAAGAG
genomic: ACAGGAAGTCATCAAAGCAATGGTCATCCACATTGAACAAACTTGCACAAggttataccc ... ccaactggtaGTGCGACAAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacacattttcttcaagacatagtactaacttccatgcattttcccaactggtaGTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAATTTCATTTCATTATTGAGATATAAAAGAGATGGCAACTATGGATGTTAT
                        tactaac  putative branch site (score: 0)
                                      cattttccc  putative PPT
      attttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggttataccctccctcttatacttgtttaaatctaacacattttcttcaagacatagtactaacttccatgcattttcccaactggtaGTGCGACAAAGAGGACGGAAGAGGACCATGGTTGGATGAATCTTTATCAAATTTCATTTCATTATTGAGATATAAAAGAGATGGCAACTATGGATGTTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG