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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctagtatccagaatttcgacaatcaattggaaggatgattggtgaactagtatatgcattaatgtttttaattcttggatgatgaattattgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTTCATCTGGGAGGGAGAGG

Basic information

species Glycine max
transcript GLYMA18G46610.1
intron # 2
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|13481736|gb|BG511079.1|BG511079
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTTTGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
EST: gi|192299097|gb|FG990411.1|FG990411
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
EST: gi|7285538|gb|AW598025.1|AW598025
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
EST: gi|192328575|gb|FK023565.1|FK023565
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
EST: gi|12490017|gb|BG043538.1|BG043538
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
EST: gi|254319562|gb|GR829074.1|GR829074
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
EST: gi|17401910|gb|BM178692.1|BM178692
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTTTGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
EST: gi|192295537|gb|FG988111.1|FG988111
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
EST: gi|19453234|gb|BM954644.1|BM954644
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
EST: gi|298178438|gb|HO024173.1|HO024173
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTTTGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACATGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
EST: gi|192298436|gb|FG988452.1|FG988452
EST:     GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGA                         GCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT
genomic: GGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGGtaaccgaatt ... attgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaactagtatatgcattaatgtttttaattcttggatgatgaattattgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTTCATCTGGGAGGGAGAGG
                      ttttaat  putative branch site (score: 3)
       tatatgcattaatgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctagtatccagaatttcgacaatcaattggaaggatgattggtgaactagtatatgcattaatgtttttaattcttggatgatgaattattgtgtagaGCCAGGAGAGTATGTTGTTCGTGAGGGAGAACGTGGGGACGGTCTTTACTTCATCTGGGAGGGAGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - -tggaagg
- - - - - - - - - - - - - - - - - - - -attggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgatg