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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGATACTATTTGGGAGTCTGGACTTAGCAAACTATTTTCTGATATTAAAATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgttttctgaggctaaactttctcctgatgtagttactagttagttagtaatagtatagcttttctgtttgctaaagcttatatctttggaca...

Basic information

species Glycine max
transcript GLYMA10G38530.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G38530.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv16s0022g02410.t01 (Vitis vinifera), 5'ss of exon 2
CAGATACTATTTGGGAGTCTGGACTTAGCAAACTATTTTCTGATATTAAAATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtt----tgttt-tctgaggctaaactttctcctgatgtagttactagttagttagtaatagtatagcttttctgtttgctaaagc---ttatatctttggaca
|| | || || ||| | |||||||||| |||| |||||||||||||||| |||||||| ||||||||||| || || ||||||||||| ||||| || ||||  |||    | ||| | ||    |  | ||| | |  || | | || |||  | ||| |     ||||||| |   || | ||||| |   |   | || || || 
CATACACAATATGGCAATCTGGACTTAACAAATTATTTTCTGATATTAAGATTCGAGGGAAGGTTGCTGTTGGGCTGAATCCAAATATCAGATTTTACAGgtcagttgaactatttgtttgtttttttatttttttcccatatggata-tag--aattatt-----tatagctgtctggtctactaaaaccattcccagctgtgaact
















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|298195506|gb|HO043897.1|HO043897
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|298169244|gb|HO020604.1|HO020604
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|298176003|gb|HO015408.1|HO015408
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|298188227|gb|HO034920.1|HO034920
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|298190800|gb|HO032921.1|HO032921
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGACCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|298186419|gb|HO037052.1|HO037052
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAGAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|192331818|gb|FK024922.1|FK024922
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|298177788|gb|HO027341.1|HO027341
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGCTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|151404381|gb|EV274191.1|EV274191
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|298180216|gb|HO025431.1|HO025431
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|192301620|gb|FG998472.1|FG998472
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|192330573|gb|FK022704.1|FK022704
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|298175541|gb|HO018252.1|HO018252
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|192316313|gb|FK011672.1|FK011672
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|37997497|gb|CF809086.1|CF809086
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
EST: gi|192310334|gb|FK002214.1|FK002214
EST:     ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAG                         GTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT
genomic: ATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgt ... tgcatttcagGTACAAGGTTGGTCAGCGCTTTGGACGGCATATTGATGAAAGTGTTGATCT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGATACTATTTGGGAGTCTGGACTTAGCAAACTATTTTCTGATATTAAAATTCGAGGAAAGGTTGCTGTAGGCCTCAATCCAAATATTAGATTCTATAGgttcgtttgttttctgaggctaaactttctcctgatgtagttactagttagttagtaatagtatagcttttctgtttgctaaagcttatatctttggaca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttctcc