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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcactctcaactcaactctcttattatctttcctttttgtattggataatagtatgcatctctcattctttggtgattagatctgatgaattaattgagcatctgagtgcagAAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGGGGTCGGCAGTTCGAGGTCTGTTAATGGTGGCTTCAGGGGTTCTTCCAGT

Basic information

species Glycine max
transcript GLYMA12G28730.1
intron # 1
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|298183850|gb|HO029063.1|HO029063
EST:     TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAG                         AAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
genomic: TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAGgtcactctca ... ctgagtgcagAAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
EST: gi|213591928|gb|DB973451.1|DB973451
EST:     TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAG                         AAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
genomic: TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAGgtcactctca ... ctgagtgcagAAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
EST: gi|151408377|gb|EV278185.1|EV278185
EST:     TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAG                         AAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
genomic: TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAGgtcactctca ... ctgagtgcagAAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
EST: gi|6567403|gb|AW235014.1|AW235014
EST:     TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAG                         AAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
genomic: TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAGgtcactctca ... ctgagtgcagAAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
EST: gi|208327655|gb|GE119811.1|GE119811
EST:     TTGCGCTGCTCTCATTCTCACCACAAACTGACACCTGCCTGCAGTTGAAG                         AAAGAGTAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
genomic: TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAGgtcactctca ... ctgagtgcagAAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
EST: gi|7924283|gb|AW830309.1|AW830309
EST:     TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAG                         AAAGAATAGAGGATCGTGGTCGATAGCGTCTGCTAGCCTTGGAAGTGGTGG
genomic: TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAGgtcactctca ... ctgagtgcagAAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
EST: gi|298193971|gb|HO040619.1|HO040619
EST:     TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAG                         AAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG
genomic: TTGCGCTGCTCTCATTCTCACCACAAACTGACACTTGCCTGCAGTTGAAGgtcactctca ... ctgagtgcagAAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctctcattctttggtgattagatctgatgaattaattgagcatctgagtgcagAAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGGGGTCGGCAGTTCGAGGTCTGTTAATGGTGGCTTCAGGGGTTCTTCCAGT
                               aattaat  putative branch site (score: 3)
                            atgaattaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcactctcaactcaactctcttattatctttcctttttgtattggataatagtatgcatctctcattctttggtgattagatctgatgaattaattgagcatctgagtgcagAAAGAATAGAGGATCGTGGTCGATGGCGTCTGCTAGCCTTGGAAGTGGTGGGGTCGGCAGTTCGAGGTCTGTTAATGGTGGCTTCAGGGGTTCTTCCAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG