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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggctgatgtatcccatcttatggttatagaaaaaagcacttcatgtgtttacaagcgaaaactgattcttaatgtggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAGGCATATATCCAGTTGGCTGATTTAGATTTGGCTGAATTTGATATTAAGA

Basic information

species Glycine max
transcript GLYMA16G10730.1
intron # 10
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|209706891|gb|BW661501.1|BW661501
EST:     GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAG                         GTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
genomic: GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAGgtatggctga ... ggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
EST: gi|21255768|gb|BQ452656.1|BQ452656
EST:     GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAG                         GTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
genomic: GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAGgtatggctga ... ggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
EST: gi|8827067|gb|BE210797.1|BE210797
EST:     GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAG                         GTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
genomic: GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAGgtatggctga ... ggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
EST: gi|8827032|gb|BE210762.1|BE210762
EST:     GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAG                         GTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
genomic: GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAGgtatggctga ... ggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
EST: gi|7284778|gb|AW597328.1|AW597328
EST:     GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAG                         GTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
genomic: GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAGgtatggctga ... ggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
EST: gi|26059121|gb|CA802035.1|CA802035
EST:     TTGTGCACAAAG                         GTACCT-TACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCA
genomic: TTGTGCACAAAGgtatggctga ... ggacaagcagGTA-CTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCA
EST: gi|7284769|gb|AW597319.1|AW597319
EST:     GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAG                         GTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
genomic: GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAGgtatggctga ... ggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
EST: gi|58020765|gb|CX707507.1|CX707507
EST:     GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAG                         GTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
genomic: GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAGgtatggctga ... ggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
EST: gi|192317653|gb|FK011331.1|FK011331
EST:     GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAG                         GTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
genomic: GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAGgtatggctga ... ggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
EST: gi|10255841|gb|BE823607.1|BE823607
EST:     GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAG                         GTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG
genomic: GCAAGTTAAAATTAAAAGATTACAAACAAGCAGAGAAATTGTGCACAAAGgtatggctga ... ggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaagcacttcatgtgtttacaagcgaaaactgattcttaatgtggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAGGCATATATCCAGTTGGCTGATTTAGATTTGGCTGAATTTGATATTAAGA
                                    tcttaat  putative branch site (score: 3)
                                  attcttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatggctgatgtatcccatcttatggttatagaaaaaagcacttcatgtgtttacaagcgaaaactgattcttaatgtggacaagcagGTACTGGACCTTGAGAGTACTAACGTGAAGGCTCTTTATAGACGGACCCAGGCATATATCCAGTTGGCTGATTTAGATTTGGCTGAATTTGATATTAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT