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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcattatattcgtttaatgcttttttatgttgcgtatcttgtctaatttacttagcaattgcttttctactagAGTGGACCTGGCCTATCATCAAAATCAGATTGGGGAGTCAACTATCGGGCACTTCATGATCTTTTCCATATCTCCCAGAGTAGGAGAAGCTCTATTGTTT

Basic information

species Glycine max
transcript GLYMA05G37800.1
intron # 14
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|208035922|gb|GD836903.1|GD836903
EST:     AAAGACTTATACGATG                         AGTGGACCTGGCCTATCATCAAAATCAGATTGGGGAGTCAACTATCGGGCA
genomic: AAAGACATATACGATGgtatgcatta ... tttctactagAGTGGACCTGGCCTATCATCAAAATCAGATTGGGGAGTCAACTATCGGGCA
EST: gi|207790473|gb|GD760868.1|GD760868
EST:     TTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATATACGATG                         AGTGGACCTGGCCTATCATACAAAATTAGATTGGGGAGTCAACTATCGGGC
genomic: TTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATATACGATGgtatgcatta ... tttctactagAGTGGACCTGGCCTATCAT-CAAAATCAGATTGGGGAGTCAACTATCGGGC
EST: gi|193312153|gb|FK275629.1|FK275629
EST:     AAAGACATATACGATG                         AGTGGACCTGGCCTATCATCAAAATCAGATTGGGGAGTCAACTATCGGGCA
genomic: AAAGACATATACGATGgtatgcatta ... tttctactagAGTGGACCTGGCCTATCATCAAAATCAGATTGGGGAGTCAACTATCGGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttttttatgttgcgtatcttgtctaatttacttagcaattgcttttctactagAGTGGACCTGGCCTATCATCAAAATCAGATTGGGGAGTCAACTATCGGGCACTTCATGATCTTTTCCATATCTCCCAGAGTAGGAGAAGCTCTATTGTTT
                      gtctaat  putative branch site (score: 3)
                                        ttgcttttct  putative PPT
                         taatttactta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcattatattcgtttaatgcttttttatgttgcgtatcttgtctaatttacttagcaattgcttttctactagAGTGGACCTGGCCTATCATCAAAATCAGATTGGGGAGTCAACTATCGGGCACTTCATGATCTTTTCCATATCTCCCAGAGTAGGAGAAGCTCTATTGTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC