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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGTGGGCTTTGTGGTAGATTGTGAATGGGCAGAGGCTAATTCCGATAAGATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctcattcatttgttccatattattattataataataagagattgacacattcaacggttgcattgacatagatcacattctattgtaacaaaa...

Basic information

species Glycine max
transcript GLYMA11G16220.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G16220.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv00s0220g00070.t01 (Vitis vinifera), 5'ss of exon 7
AAGTGGGCTTTGTGGTAGATTGTGAATGGGCAGAGGCTAATTCCGATAAGATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctcattcatttgttccatattattattataataataagagattgacacattcaacggttgcattgacatagatcacattcta-ttgt-aacaaaa--
|| | ||||| || || |||||||||||||| ||||||  ||| ||||| ||||||||||||  |||||| ||||| || || |||||||||||||| ||||| |||| | |  | ||  || |||| ||| ||    |  |||   | |   || || | |  |     |   |   || |    ||| ||||     |||  
AAATAGGCTTGGTTGTTGATTGTGAATGGGCTGAGGCTTTTTCAGATAAAATTGAAGATAAAGTTGCTGCAGCAAGGCGTCTTGATTTTCAGCTTGGATGgtacttcc-cttatacttaatcaatatcattctttggttgctaa---actcgtacttttatccttaaacctattacttattaggcactaattgttggtgaaaac
















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|193610307|gb|FK566151.1|FK566151
EST:     ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTG                         GTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
genomic: ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctc ... tttaattcagGTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
EST: gi|254323234|gb|GR840039.1|GR840039
EST:     ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTG                         GTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
genomic: ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctc ... tttaattcagGTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
EST: gi|12688294|gb|BG154630.1|BG154630
EST:     ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTG                         GTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
genomic: ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctc ... tttaattcagGTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
EST: gi|207808580|gb|GD777235.1|GD777235
EST:     ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTG                         GTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
genomic: ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctc ... tttaattcagGTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
EST: gi|26268409|gb|CA819472.1|CA819472
EST:     ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTG                         GTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
genomic: ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctc ... tttaattcagGTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
EST: gi|7591313|gb|AW707049.1|AW707049
EST:     GCTGCAAGACGCCTGGATTTTCAGCTTGGCTG                         GTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
genomic: GCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctc ... tttaattcagGTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
EST: gi|208119495|gb|GD915160.1|GD915160
EST:     CAAGACGCCTGGATTTTCAGCTTGGCTG                         GTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
genomic: CAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctc ... tttaattcagGTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
EST: gi|193414133|gb|FK376167.1|FK376167
EST:     ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTG                         GTTCTTGCATCCACTATATTATGGAGACTAT
genomic: ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctc ... tttaattcagGTTCTTGCATCCACTATATTATGGAGACTAT
EST: gi|20448999|gb|BQ253123.1|BQ253123
EST:     ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTG                         GTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG
genomic: ATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctc ... tttaattcagGTTCTTGCATCCACTATATTATGGAGACTATCCTGAAGTTATGCGTGAAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGTGGGCTTTGTGGTAGATTGTGAATGGGCAGAGGCTAATTCCGATAAGATTGAAGATAAATCTGCTGCTGCAAGACGCCTGGATTTTCAGCTTGGCTGgtagttcctcattcatttgttccatattattattataataataagagattgacacattcaacggttgcattgacatagatcacattctattgtaacaaaa

- - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT