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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caatctttaataccttttcaatgatattctttgcaaccactttctagatgtatcactgtataaagtcattaccttaatatcaaacttttcttgtccacagAGGTTGCTGGCTAAGTATGGATCTCTAATCTCGGTGATCTCCATCATGGTCCTGTTCATATACTTGGTAGCTTCACCATCAAAATCCAGCGCAAAGGGAA

Basic information

species Glycine max
transcript GLYMA19G27250.2
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|209706550|gb|BW667815.1|BW667815
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|193559196|gb|FK512063.1|FK512063
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|58015600|gb|CX702342.1|CX702342
EST:     AGAAG-TTGAATGGGGCTAAG
genomic: AGAAGTTTGAAT-GGGCTAAG
EST: gi|31455985|gb|CD398013.1|CD398013
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|213604354|gb|DB983470.1|DB983470
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18039442|gb|BM307736.1|BM307736
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|193364946|gb|FK333203.1|FK333203
EST:     GAAG-TTGAATGGGCTAAG
genomic: GAAGTTTGAATGGGCTAAG
EST: gi|193709620|gb|FK646000.1|FK646000
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatgtatcactgtataaagtcattaccttaatatcaaacttttcttgtccacagAGGTTGCTGGCTAAGTATGGATCTCTAATCTCGGTGATCTCCATCATGGTCCTGTTCATATACTTGGTAGCTTCACCATCAAAATCCAGCGCAAAGGGAA
                          ccttaat  putative branch site (score: 4)
                                       cttttcttgtccac  putative PPT
                            ttaatatcaaactttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caatctttaataccttttcaatgatattctttgcaaccactttctagatgtatcactgtataaagtcattaccttaatatcaaacttttcttgtccacagAGGTTGCTGGCTAAGTATGGATCTCTAATCTCGGTGATCTCCATCATGGTCCTGTTCATATACTTGGTAGCTTCACCATCAAAATCCAGCGCAAAGGGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - -caaccac
- - - - - - - - - - - - - - - - - - - - - - - - - - -cactgta