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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaaatcaattttctgtttttgctaaatttattttcacttcagtttacaaggtgaacttttctagtgtctctacttgactttattccgtcatttattcagTTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTTTGATGAGGACCCAAAGCGTAATCCACAAGCACGTCTTCATGAGACACTAACCTA

Basic information

species Glycine max
transcript GLYMA08G15610.1
intron # 5
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|209728096|gb|BW655331.1|BW655331
EST:     AAATCCATTCTTTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAA                         TTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTTTGATG
genomic: AAATCCATTCTTTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAAgtaagttaaa ... atttattcagTTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTTTGATG
EST: gi|214008530|gb|DB987435.1|DB987435
EST:     AAT-CGTTATATTACCACAGACACTGCTGCAGCACACAGATGTGCAGAAA                         TTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTTTGATG
genomic: AATCCATTCT-TTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAAgtaagttaaa ... atttattcagTTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTTTGATG
EST: gi|16277118|gb|BI942213.1|BI942213
EST:     AAATCCATTCTTTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAA                         TTAATGCCGAGGTTGTACCTCAA-GCAACAAACGTTGATGGAGTTNTTGAT
genomic: AAATCCATTCTTTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAAgtaagttaaa ... atttattcagTTAATGCCGAGGTTGTAC-TCAAAGCAACAAACGTTGATGGAGTTTTTGAT
EST: gi|192301628|gb|FG994364.1|FG994364
EST:     AAATCCATTCTTTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAA                         TTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTTTGATG
genomic: AAATCCATTCTTTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAAgtaagttaaa ... atttattcagTTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTTTGATG
EST: gi|5509675|gb|AI856233.1|AI856233
EST:     -AATCCATTCTTTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAA                         TTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTNTGATG
genomic: AAATCCATTCTTTACCACAGACACTGCTGCAGCACTCCGATGTGCAGAAAgtaagttaaa ... atttattcagTTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTTTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacaaggtgaacttttctagtgtctctacttgactttattccgtcatttattcagTTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTTTGATGAGGACCCAAAGCGTAATCCACAAGCACGTCTTCATGAGACACTAACCTA
                           acttgac  putative branch site (score: 4)
                                              tttattc  putative PPT
                                           tcatttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcaaatcaattttctgtttttgctaaatttattttcacttcagtttacaaggtgaacttttctagtgtctctacttgactttattccgtcatttattcagTTAATGCCGAGGTTGTACTCAAAGCAACAAACGTTGATGGAGTTTTTGATGAGGACCCAAAGCGTAATCCACAAGCACGTCTTCATGAGACACTAACCTA

- - - - - -ttctgtt
- - - - - - - - - - - - - - - - - -cacttca