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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacttatgctcataagttttgattgactagcgtaatgcataaatatctatgattcttacatctctatgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACACCTCTTGAGCATCTTCTTGCACTTGTGCTGGGCTGCTGGCAAAGCTGTA

Basic information

species Glycine max
transcript GLYMA20G21510.2
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|10709400|gb|BF009124.1|BF009124
EST:     AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
genomic: AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttat ... tgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
EST: gi|192325421|gb|FK018377.1|FK018377
EST:     AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
genomic: AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttat ... tgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
EST: gi|209724913|gb|BW669602.1|BW669602
EST:     AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
genomic: AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttat ... tgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
EST: gi|254320358|gb|GR831166.1|GR831166
EST:     AGTGGAAGGAAATCATAGATGTTAACGACA-GATA-CATACA-CTTTCAT                         GATGATTCTAGA
genomic: AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttat ... tgtgttgcagGATGATTCTAGA
EST: gi|192310625|gb|FG999592.1|FG999592
EST:     AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
genomic: AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttat ... tgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
EST: gi|120532041|gb|EH260174.1|EH260174
EST:     AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
genomic: AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttat ... tgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
EST: gi|7692491|gb|AW760596.1|AW760596
EST:     AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
genomic: AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttat ... tgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
EST: gi|120533215|gb|EH261348.1|EH261348
EST:     AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
genomic: AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttat ... tgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACA
EST: gi|23733803|gb|BU765115.1|BU765115
EST:     AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCAT                         GATGATTCTAGAACCCAAGGAGCATCAAAGGGT
genomic: AGTGGAAGGAAATCATAGATGTTAACGACAAGATAACATACAACTTTCATgtaaacttat ... tgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgactagcgtaatgcataaatatctatgattcttacatctctatgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACACCTCTTGAGCATCTTCTTGCACTTGTGCTGGGCTGCTGGCAAAGCTGTA
                               ttcttac  putative branch site (score: 2)
                                       tctctat  CT-rich tract
                 ataaatatctatgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaacttatgctcataagttttgattgactagcgtaatgcataaatatctatgattcttacatctctatgtgttgcagGATGATTCTAGAACCAAAGGAGCATCAAAGGGTCGATACACCGTATAAACACCTCTTGAGCATCTTCTTGCACTTGTGCTGGGCTGCTGGCAAAGCTGTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG