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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttacttttatttatttacagtgtagtgtttctgagtttctgttacgaattacgatcttttggtttggtttttgtctgtttgatcttgttgttgcagtGTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGG

Basic information

species Glycine max
transcript GLYMA18G46610.1
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|13481736|gb|BG511079.1|BG511079
EST:     GGCGAAGGAAGATGT                         GTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGG-TTCCTGGCTCGTC
genomic: GGCGAAGGAAGATGGtgagtgagat ... ttgttgcagtGTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
EST: gi|192299097|gb|FG990411.1|FG990411
EST:     AGTGTAATGGCGAAGGAAGATGT                         GTTTGAGCTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
genomic: AGTGTAATGGCGAAGGAAGATGGtgagtgagat ... ttgttgcagtGTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
EST: gi|192328575|gb|FK023565.1|FK023565
EST:     AGTGTAATGGCGAAGGAAGATGT                         GTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
genomic: AGTGTAATGGCGAAGGAAGATGGtgagtgagat ... ttgttgcagtGTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
EST: gi|254319562|gb|GR829074.1|GR829074
EST:     GCGAAGGAAGATGT                         GTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
genomic: GCGAAGGAAGATGGtgagtgagat ... ttgttgcagtGTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
EST: gi|17401910|gb|BM178692.1|BM178692
EST:     GTAATGGCGAAGGAAGATGT                         GTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
genomic: GTAATGGCGAAGGAAGATGGtgagtgagat ... ttgttgcagtGTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
EST: gi|192295537|gb|FG988111.1|FG988111
EST:     ATCAGTGTAATGGCGAAGGAAGATGT                         GTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
genomic: ATCAGTGTAATGGCGAAGGAAGATGGtgagtgagat ... ttgttgcagtGTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
EST: gi|298178438|gb|HO024173.1|HO024173
EST:     ATCAGTGTAATGGCGAAGGAAGATGT                         GTTTGCGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC
genomic: ATCAGTGTAATGGCGAAGGAAGATGGtgagtgagat ... ttgttgcagtGTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacgaattacgatcttttggtttggtttttgtctgtttgatcttgttgttgcagtGTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGG
                                  gtttgat  putative branch site (score: 5)
                                        tcttgtt  CT-rich tract
           atctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attttacttttatttatttacagtgtagtgtttctgagtttctgttacgaattacgatcttttggtttggtttttgtctgtttgatcttgttgttgcagtGTTTGAGTTCCTCGGGAACGTTCCTCTGCTACAGAGGCTTCCTGGCTCGTCTGTGCGGAAGATATCTGAGCTTGTGATTCTCAAACACTATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - tacagtg
- - - - - - - - - - - - - - -gtttctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtttgg