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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cactaatgcatcttgttatatgtgagcgtacttgtgttcttgttttaatttggtgcctgtattatttgtgaatttagtgtttcccgtcttggtttgttagGTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATTGTTATGGGAAAGTGGTTGGAGTTAGCATCATTGATGATTACCTCTGCTG

Basic information

species Glycine max
transcript GLYMA10G28080.2
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|208056084|gb|GD850725.1|GD850725
EST:     CCGTCGTTCGATTCGCCTCCGAACTTGCCTGGGCCGATGCCGGTCCTGAG                         GTTGCTGAGCCCCAAGTTAG
genomic: CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAGgtagctttct ... ggtttgttagGTTGCTGAGCCCCAAGTTAG
EST: gi|208244592|gb|GE038549.1|GE038549
EST:     CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAG                         GTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATT
genomic: CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAGgtagctttct ... ggtttgttagGTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATT
EST: gi|4260432|gb|AI416928.1|AI416928
EST:     CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAG                         GTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATT
genomic: CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAGgtagctttct ... ggtttgttagGTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATT
EST: gi|208298971|gb|GE093724.1|GE093724
EST:     CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAG                         GTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATT
genomic: CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAGgtagctttct ... ggtttgttagGTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATT
EST: gi|208255810|gb|GE052789.1|GE052789
EST:     CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAG                         GTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGG
genomic: CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAGgtagctttct ... ggtttgttagGTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGG
EST: gi|208320093|gb|GE116410.1|GE116410
EST:     CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAG                         GTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATT
genomic: CCGTCGTTCGATTCGCCTCTGAACTTGCCTGGGCCGATGCCGGTCCTGAGgtagctttct ... ggtttgttagGTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttggtgcctgtattatttgtgaatttagtgtttcccgtcttggtttgttagGTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATTGTTATGGGAAAGTGGTTGGAGTTAGCATCATTGATGATTACCTCTGCTG
 ttttaat  putative branch site (score: 3)
              tattatttgtgaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cactaatgcatcttgttatatgtgagcgtacttgtgttcttgttttaatttggtgcctgtattatttgtgaatttagtgtttcccgtcttggtttgttagGTTGCTGAGCCCCAAGTTAGCAGACTCTGCACGGAGGCTGAAGAGTTCATTGTTATGGGAAAGTGGTTGGAGTTAGCATCATTGATGATTACCTCTGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - aatgcat
- - - - - - - - - - - - - - - - tgtgttc
- - - - - - - - - - - - - - - - - - - - - - - - - tggtgcc