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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccttcatacagctgtatgcactacttgtagagaacaatatttcttttgcttaattttggggatttgattgtttgacctctctctctctcaattcaccagTCGCTTGGGGGATGTAATCGATGCCAGATAATCAACCTTACAATAAATGCGGGACAAGTGCAAAAGTCAAATGAACCTTTGGCAACTTTAGCATCCTACA

Basic information

species Glycine max
transcript GLYMA09G00460.1
intron # 20
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|209697831|gb|BW670087.1|BW670087
EST:     ATGCTGAAGATGGATGGAGATACATTAGGATTGGAAACAAGTATTTCAGT                         TCGCTTGGGGGATGTAATCGATGCCAGATAATCAACCTTACAATAAATGCG
genomic: ATGCTGAAGATGGATGGAGATACATTAGGATTGGAAACAAGTATTTCAGTgtaagtgcaa ... aattcaccagTCGCTTGGGGGATGTAATCGATGCCAGATAATCAACCTTACAATAAATGCG
EST: gi|214006397|gb|DB986145.1|DB986145
EST:     GCTGAAGATGGATGGAGATACATTAGGATTGGAAACAAGAATTTCAGT                         TCGCTTGGGGGATGTAATCGATGCCAGATAATCAACCTTACAATAAATGCG
genomic: GCTGAAGATGGATGGAGATACATTAGGATTGGAAACAAGTATTTCAGTgtaagtgcaa ... aattcaccagTCGCTTGGGGGATGTAATCGATGCCAGATAATCAACCTTACAATAAATGCG
EST: gi|22932848|gb|BU549987.1|BU549987
EST:     ATGCTGAAGATGGATGGAGATACATTAGGATTGGAAACAAGTATTTCAGT                         TCGCTTGGGGGATGTAATCGATGCCAGATAATCAACCTTACAATAAATGCG
genomic: ATGCTGAAGATGGATGGAGATACATTAGGATTGGAAACAAGTATTTCAGTgtaagtgcaa ... aattcaccagTCGCTTGGGGGATGTAATCGATGCCAGATAATCAACCTTACAATAAATGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgcttaattttggggatttgattgtttgacctctctctctctcaattcaccagTCGCTTGGGGGATGTAATCGATGCCAGATAATCAACCTTACAATAAATGCGGGACAAGTGCAAAAGTCAAATGAACCTTTGGCAACTTTAGCATCCTACA
                         gtttgac  putative branch site (score: 4)
 cctctctctctctcaa  CT-rich tract
 ttaatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccttcatacagctgtatgcactacttgtagagaacaatatttcttttgcttaattttggggatttgattgtttgacctctctctctctcaattcaccagTCGCTTGGGGGATGTAATCGATGCCAGATAATCAACCTTACAATAAATGCGGGACAAGTGCAAAAGTCAAATGAACCTTTGGCAACTTTAGCATCCTACA

- - tcataca
- - - - - - - gtatgca
- - - - - - - - - - -ctacttg
- - - - - - - - - - - - - - - - - - - - - -cttttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tttgggg