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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacatgtaggcatccatataattaatctgtgatttttttttttttaattcttgtgtacatcatcgtttgtgagcactcagttatccaattaatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAGTTTGAGGGGTTAAAATTCAAACTCACAGATGGTGTTGATATAGCAGATG

Basic information

species Glycine max
transcript GLYMA16G22650.1
intron # 1
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|6482037|gb|AW201308.1|AW201308
EST:     AGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: AGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|213607258|gb|DB957122.1|DB957122
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|192311268|gb|FK003431.1|FK003431
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|17400224|gb|BM177006.1|BM177006
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|192311267|gb|FK003430.1|FK003430
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|298175707|gb|HO015226.1|HO015226
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|209725649|gb|BW663138.1|BW663138
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|207798433|gb|GD769557.1|GD769557
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGA
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGA
EST: gi|24205233|gb|BU964486.1|BU964486
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTG-GAAAGGAGATTGACTTGCTGGCAGATGA
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAA-GGAGATTGAGTTGCTGGTAGATGA
EST: gi|254343641|gb|GR857397.1|GR857397
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|7233762|gb|AW569105.1|AW569105
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|6747804|gb|AW318260.1|AW318260
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|7234818|gb|AW570151.1|AW570151
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|254335472|gb|GR847000.1|GR847000
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|209710374|gb|BW681273.1|BW681273
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|213607905|gb|DB959174.1|DB959174
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|7233154|gb|AW568503.1|AW568503
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|13479331|gb|BG508674.1|BG508674
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|254348641|gb|GR852320.1|GR852320
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
EST: gi|254344019|gb|GR850929.1|GR850929
EST:     GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAG                         GGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG
genomic: GACTAGTTTTGAAGCCGAATGGAGAACTCATAGTTGCTGATGCGGAAAAGgtattaatta ... aatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattcttgtgtacatcatcgtttgtgagcactcagttatccaattaatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAGTTTGAGGGGTTAAAATTCAAACTCACAGATGGTGTTGATATAGCAGATG
                                         aattaat  putative branch site (score: 3)
                                         aattaatgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tacatgtaggcatccatataattaatctgtgatttttttttttttaattcttgtgtacatcatcgtttgtgagcactcagttatccaattaatgatgcagGGACTGCTGAGAGTGTCAAGTGAGAAGGAGATTGAGTTGCTGGTAGATGAGTTTGAGGGGTTAAAATTCAAACTCACAGATGGTGTTGATATAGCAGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
-acatgta
- - - - -gcatcca
- - - - - - - - - - - - atctgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcactca