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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgacaagttttaatagccactctgttacttccatctagtttctgttggtgtttgatttgacttgaagtaataaaagaaccaagacatctggattatgcagGGATTGGTGGAGCACCATAAGGAAATAGCAGAATATTTCAATCATAGACGTGTTTCAATTATATTTCTTTTCCGGAGAAACTTGCTACGCAGGATGGTAT

Basic information

species Glycine max
transcript GLYMA01G39190.1
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|208308514|gb|GE102914.1|GE102914
EST:     CCAAGAATGAGTGCTCTGCTGCAACTGGTTTGAAGTGGATGCTTAATCAG                         GGATTGGTGGAGCACCATAAGGAAA
genomic: CCAAGAATGAGTGCTCTGCTGCAACTGGTTTGAAGTGGATGCTTAATCAGgtacacatgc ... gattatgcagGGATTGGTGGAGCACCATAAGGAAA
EST: gi|207834365|gb|GD806266.1|GD806266
EST:     CCAAGAATGAGTGCTCTGCTGCAACTGGTTTGAAGTGGATGCTTAATCAG                         GGATTGGTGGAGCACCATA
genomic: CCAAGAATGAGTGCTCTGCTGCAACTGGTTTGAAGTGGATGCTTAATCAGgtacacatgc ... gattatgcagGGATTGGTGGAGCACCATA
EST: gi|31462888|gb|CD404916.1|CD404916
EST:     CCAAGAATGAGTGCTCTGCTGCAACTGGTTTGAAGTGGATGCTTAATCAG                         GGATTGGTGGAGCACCATAAGGAAATAGCAGAATATTTCAATCATAGACGT
genomic: CCAAGAATGAGTGCTCTGCTGCAACTGGTTTGAAGTGGATGCTTAATCAGgtacacatgc ... gattatgcagGGATTGGTGGAGCACCATAAGGAAATAGCAGAATATTTCAATCATAGACGT
EST: gi|208264168|gb|GE062538.1|GE062538
EST:     CCAAGAATGAGTGCTCTGCTGCAACTGGTTTGAAGTGGATGCTTAATCAG                         GGATTGGTGGAGCACCATAAGGAAATAGCAGAATATTT
genomic: CCAAGAATGAGTGCTCTGCTGCAACTGGTTTGAAGTGGATGCTTAATCAGgtacacatgc ... gattatgcagGGATTGGTGGAGCACCATAAGGAAATAGCAGAATATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgtttgatttgacttgaagtaataaaagaaccaagacatctggattatgcagGGATTGGTGGAGCACCATAAGGAAATAGCAGAATATTTCAATCATAGACGTGTTTCAATTATATTTCTTTTCCGGAGAAACTTGCTACGCAGGATGGTAT
         atttgac  putative branch site (score: 4)
                ttgaagtaataaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgacaagttttaatagccactctgttacttccatctagtttctgttggtgtttgatttgacttgaagtaataaaagaaccaagacatctggattatgcagGGATTGGTGGAGCACCATAAGGAAATAGCAGAATATTTCAATCATAGACGTGTTTCAATTATATTTCTTTTCCGGAGAAACTTGCTACGCAGGATGGTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
tgacaag
- - - - - - - - ccactct
- - - - - - - - - - - - - - - ccatcta
- - - - - - - - - - - - - - - - - - - - - -gttggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaagac