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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATTGCCAAGGCGGGGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattacatgtcaaagtttcaattgtagtcatttttcaactcatgatgcggtgaattttaattcttcatattgctgtctgtag

Basic information

species Glycine max
transcript GLYMA14G00760.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G00760.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv12s0057g01200.t01 (Vitis vinifera), 5'ss of exon 11
ATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATTGCCAAGGCGGGGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattacatgtcaaagttt------caattgtag--tcattt-ttcaactcatgatgcggtgaattttaattcttcatattgctgtctgtag
|||||| || |||||| ||||||| ||||| ||||||||| | || || || |||||| |||| ||||||||||  |||||||| |||||||||||||| ||| | ||  |||      | |      ||||   |   |||||| |||||   ||||       ||| ||| ||  ||| ||||   |||| ||
ATTTACTACAGCTCCAGCCCTTGCAATTCCAAAAGCTATTTCAAATGCAGGCTTGGAGGCTTCTCAAATTGATTACTATGAAATAAATGAAGCCTTTGCTgtaagtttttatgcattgatcttcaacacaatcacaaactcatttgttcaatctatgaattcac-aatcttattttgtcacattgg-atctgcag
















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|10848225|gb|BF070769.1|BF070769
EST:     GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|192329989|gb|FK021575.1|FK021575
EST:     GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|17021784|gb|BM092818.1|BM092818
EST:     GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|15812294|gb|BI784569.1|BI784569
EST:     GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|31472565|gb|CD414593.1|CD414593
EST:     TGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: TGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|151406879|gb|EV276694.1|EV276694
EST:     GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|298184901|gb|HO030114.1|HO030114
EST:     GGTTGGAGACTTCACAAATTGATTTTCATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|192313001|gb|FK003653.1|FK003653
EST:     GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|31472065|gb|CD414093.1|CD414093
EST:     GTTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTCCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|208170990|gb|GD970183.1|GD970183
EST:     GGTTGGAGACTTCGCAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|192328380|gb|FK020091.1|FK020091
EST:     GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|15203843|gb|BI426611.1|BI426611
EST:     GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|209708680|gb|BW678861.1|BW678861
EST:     GGTTGGAGACTTCGCAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTTGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|10256517|gb|BE824283.1|BE824283
EST:     GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG
EST: gi|37994372|gb|CF806118.1|CF806118
EST:     GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCG                         GTTGTGGCTCTCGCAAATCAGAA-CTTCTTGGACTTAACTCG
genomic: GGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattac ... ctgtctgtagGTTGTGGCTCTCGCAAATCAGAAACTTCTTGGACTTAACTCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTACAACGGCTCCATCCCTTGCCATTCCCAAAGCTATTGCCAAGGCGGGGTTGGAGACTTCACAAATTGATTTTTATGAAATTAATGAAGCCTTTGCGgtaggattacatgtcaaagtttcaattgtagtcatttttcaactcatgatgcggtgaattttaattcttcatattgctgtctgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC