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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaattttagctgtattgtggattctcttgtttgctagcttgcaatgatttctgtgtgtattcgtgcaaatgattattgtttttctgttggaatacacgtaaatgattgtcatttttctgttggaatacacgtaaatgattgtgatttttctgttggaatacatgcaattgattgtcgtttttctgttggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG

Basic information

species Glycine max
transcript GLYMA06G14050.2
intron # 3
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|193572001|gb|FK529158.1|FK529158
EST:     GGGAGGAGATGATTCGGNGGACCGTTTATGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|193542464|gb|FK497570.1|FK497570
EST:     GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|207681195|gb|GD661942.1|GD661942
EST:     GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|208297539|gb|GE092810.1|GE092810
EST:     GGGAGGAGATGATTCGGAGGACCGTTTATGCGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCCCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|193387164|gb|FK352959.1|FK352959
EST:     GTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|208149690|gb|GD947694.1|GD947694
EST:     GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|193378815|gb|FK345156.1|FK345156
EST:     GTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|208284307|gb|GE083707.1|GE083707
EST:     GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|193607198|gb|FK560079.1|FK560079
EST:     GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|151397590|gb|EV267463.1|EV267463
EST:     GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|21677144|gb|BQ629495.1|BQ629495
EST:     GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|208291734|gb|GE090630.1|GE090630
EST:     GGGAGGAGATGATTCGGAGGACCGTTTGTGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCGGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|15661924|gb|BI699295.1|BI699295
EST:     GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
EST: gi|254343883|gb|GR857639.1|GR857639
EST:     GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTG                         GTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
genomic: GGGAGGAGATGATTCGGAGGACCGTTTATGTGTCTGACATTGATCAACTGgtataaattt ... tggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatttttctgttggaatacatgcaattgattgtcgtttttctgttggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG
                        aattgat  putative branch site (score: 4)
                                    tttttctgtt  putative PPT
                        aattgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataaattttagctgtattgtggattctcttgtttgctagcttgcaatgatttctgtgtgtattcgtgcaaatgattattgtttttctgttggaatacacgtaaatgattgtcatttttctgttggaatacacgtaaatgattgtgatttttctgttggaatacatgcaattgattgtcgtttttctgttggcatctagGTTACTGAAGAGCAGCTGGCAGCTCTCTTTCTCAACTGCGGCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC