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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgatgttatgttctgctagttctatagctgaccttatatttttcttgtttcattgattctttattacagtactttctgtttaaaatttttattgattctgtacaaattgtattttcctgaagTTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGAGATGTAAAGCTAGGTTTGAGAGGCATCAGAGAATAGGGGAACGTGTG

Basic information

species Glycine max
transcript GLYMA01G07680.1
intron # 8
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|10237247|gb|BE806135.1|BE806135
EST:     ATAACTTCCATTCAAAATCTTTCAGCTATGGTG                         TTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGA
genomic: ATAACTTCCATTCAAAATCTTTCAGCTATGGTGgtatgtgatg ... tttcctgaagTTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGA
EST: gi|9983973|gb|BE658081.1|BE658081
EST:     TGATAATGGAATAAAGCATAACTTCCATTCAAAATCTTTCAGTTATGGTG                         TTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGA
genomic: TGATAATGGAATAAAGCATAACTTCCATTCAAAATCTTTCAGCTATGGTGgtatgtgatg ... tttcctgaagTTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGA
EST: gi|5342566|gb|AI794850.1|AI794850
EST:     TGATAATGGAATAAAGCATAACTTCCATTCAAAATCTTTCAGCTATGGTG                         TTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGA
genomic: TGATAATGGAATAAAGCATAACTTCCATTCAAAATCTTTCAGCTATGGTGgtatgtgatg ... tttcctgaagTTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGA
EST: gi|16996582|gb|BM085954.1|BM085954
EST:     TGATAATGGAATAAAGCATAACTTCCATTCAAAATCTTTCAGCTATGGTG                         TTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGA
genomic: TGATAATGGAATAAAGCATAACTTCCATTCAAAATCTTTCAGCTATGGTGgtatgtgatg ... tttcctgaagTTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtactttctgtttaaaatttttattgattctgtacaaattgtattttcctgaagTTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGAGATGTAAAGCTAGGTTTGAGAGGCATCAGAGAATAGGGGAACGTGTG
                      tattgat  putative branch site (score: 3)
                                          tattttcct  putative PPT
           tttaaaatttttattg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtgatgttatgttctgctagttctatagctgaccttatatttttcttgtttcattgattctttattacagtactttctgtttaaaatttttattgattctgtacaaattgtattttcctgaagTTCGTGATTCTACTGATGTATCTGATGGAGCTAATGGTGATTCTGCTCAGAGATGTAAAGCTAGGTTTGAGAGGCATCAGAGAATAGGGGAACGTGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG