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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atattaggcctctaattgcaacaaatattcatttttcatcatctttttttcttcttctgtctaattatgatttctttttcttgtttgaacatgataacagACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATGCTATGATTATGTTCATGGGAAACACAACTACTTCATCTACCTCTTCCTT

Basic information

species Glycine max
transcript GLYMA11G19490.1
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|10843431|gb|BF066730.1|BF066730
EST:     AATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAGG                         ACTTAATTTACTGGAGTTGGGATTCGCTGCCTTCCTCTTAGTATGTGGATG
genomic: AATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAGgtcagttctt ... atgataacagACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG
EST: gi|33389798|gb|CA853005.1|CA853005
EST:     AATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAG                         ACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG
genomic: AATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAGgtcagttctt ... atgataacagACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG
EST: gi|7924903|gb|AW830929.1|AW830929
EST:     AATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAG                         ACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG
genomic: AATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAGgtcagttctt ... atgataacagACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG
EST: gi|21888941|gb|BQ742154.1|BQ742154
EST:     AATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAG                         ACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG
genomic: AATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAGgtcagttctt ... atgataacagACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG
EST: gi|15664717|gb|BI702088.1|BI702088
EST:     AATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAG                         ACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG
genomic: AATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAGgtcagttctt ... atgataacagACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG
EST: gi|9902700|gb|BE611668.1|BE611668
EST:     ATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAG                         ACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG
genomic: ATGCCATCAAGGCCACCCCCAAAAAGACTCGATCCAAATTTGTTGAAAGgtcagttctt ... atgataacagACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttcttcttctgtctaattatgatttctttttcttgtttgaacatgataacagACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATGCTATGATTATGTTCATGGGAAACACAACTACTTCATCTACCTCTTCCTT
             gtctaat  putative branch site (score: 3)
                taattatgatttcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atattaggcctctaattgcaacaaatattcatttttcatcatctttttttcttcttctgtctaattatgatttctttttcttgtttgaacatgataacagACTTAATTTACTGGAGTTGGGATTTGCTGCCTTCCTCTTCGTATGTGGATGCTATGATTATGTTCATGGGAAACACAACTACTTCATCTACCTCTTCCTT

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