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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctagaattgatcttggcattcctgtttatgaatatgcaaatacttagctgcaatttcagacagaagtgatctgtctctgtgcattctgttaatttctagGTTGGAGGCCTTGGATTCTACACTATCTTCATCTTCTGATGCCGGAGTTATCAAATCTGGATTTAGTATTGATAAATTAAGCCATGGTCATGGAAACAGC

Basic information

species Glycine max
transcript GLYMA17G08120.1
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|193447024|gb|FK413695.1|FK413695
EST:     TGTGGTCCCAAGTCAGAATACATGGGTGGCCAGCGGGAAAATTTTTTGAG                         GTTGGAGGCCTTGGATTCTACACTATCTTCATCTTCTGATGCCGGAGTTAT
genomic: TGTGGTCCCAAGTCAGAATACATGGGTGGCCAGCGGGAAAATTTTTTGAGgtatccaata ... taatttctagGTTGGAGGCCTTGGATTCTACACTATCTTCATCTTCTGATGCCGGAGTTAT
EST: gi|193661366|gb|FK601704.1|FK601704
EST:     TGTGGTCCCAAGTCAGAATACATGGGTGGCCAGCGGGAAAATTTTTTGAG                         GTTGGAGGCCTTGGATTCTACACTATCTTCATCTTCTGATGCCGGAGTTAT
genomic: TGTGGTCCCAAGTCAGAATACATGGGTGGCCAGCGGGAAAATTTTTTGAGgtatccaata ... taatttctagGTTGGAGGCCTTGGATTCTACACTATCTTCATCTTCTGATGCCGGAGTTAT
EST: gi|213617203|gb|DB963766.1|DB963766
EST:     TGTGGTCCCAAGTCAGAATACATGGGTGGCCAGCGGGAAAATTTTTTGAG                         GTTGGAGGCCTTGGATTCTACACTATCTTCATCTTCTGATGCCGGAGTTAT
genomic: TGTGGTCCCAAGTCAGAATACATGGGTGGCCAGCGGGAAAATTTTTTGAGgtatccaata ... taatttctagGTTGGAGGCCTTGGATTCTACACTATCTTCATCTTCTGATGCCGGAGTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagctgcaatttcagacagaagtgatctgtctctgtgcattctgttaatttctagGTTGGAGGCCTTGGATTCTACACTATCTTCATCTTCTGATGCCGGAGTTATCAAATCTGGATTTAGTATTGATAAATTAAGCCATGGTCATGGAAACAGC
                                          tgttaat  putative branch site (score: 3)
                                       ttctgtt  CT-rich tract
                                            ttaatttcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctagaattgatcttggcattcctgtttatgaatatgcaaatacttagctgcaatttcagacagaagtgatctgtctctgtgcattctgttaatttctagGTTGGAGGCCTTGGATTCTACACTATCTTCATCTTCTGATGCCGGAGTTATCAAATCTGGATTTAGTATTGATAAATTAAGCCATGGTCATGGAAACAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - gcattcc
- - - - - - - - - - - - - - - - -tatgcaa
- - - - - - - - - - - - - - - - - - - - - - -tagctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcattct