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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTTTGACGGATATGGATATCATGGGACATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattcttttcaggcattcattgctaatcttgtgtagctacatagatcatagaatgatgaaatgttctgacttttaatttccactttgtggtcata...

Basic information

species Glycine max
transcript GLYMA08G05030.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G05030.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv03s0038g00750.t01 (Vitis vinifera), 5'ss of exon 3
-TTTTTTGACGGATATGGATATCATGGGACATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattcttttcaggcattcattgctaatcttgtgtagctacatagatcatagaatg-atgaaatgttctgacttttaatttccactttgtggtcata--
 | |||||  ||||||||||||||||| |  ||||| ||||||| ||||||||| ||||| || || ||||| || |||||||  || |||  |  |   |   ||||||| | || | |   |     |||     || ||| ||      ||  ||    |   |  ||||  | |    
GTATTTTGGTGGATATGGATATCATGGAATGTCATTCGAGCAGAAATATCGATGTTACCCTGCATCTTTTATAGATAAGgttca-atacttaccttgtgat--gtgctaatttagttttgtccctagactcacctcttgtatgcaacaacaagaacttagtatgtgagcttgtttttagtcc
















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|19269563|gb|BM885819.1|BM885819
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATCGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|13312371|gb|BG406022.1|BG406022
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|192296041|gb|FG993404.1|FG993404
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|37994740|gb|CF806346.1|CF806346
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATCGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|192325065|gb|FK016176.1|FK016176
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|15816027|gb|BI788302.1|BI788302
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATCGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|254326846|gb|GR836455.1|GR836455
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|209716428|gb|BW653869.1|BW653869
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|16996631|gb|BM086003.1|BM086003
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATCGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|209712046|gb|BW674191.1|BW674191
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|14125023|gb|BG789461.1|BG789461
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|192309316|gb|FK000524.1|FK000524
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATCGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|254313714|gb|GR831343.1|GR831343
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|298172847|gb|HO019831.1|HO019831
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|17153552|gb|BM143485.1|BM143485
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATCGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|4304277|gb|AI443596.1|AI443596
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATCGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|213604953|gb|DB956328.1|DB956328
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|192330755|gb|FK022018.1|FK022018
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|24205916|gb|BU965169.1|BU965169
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATCGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|213599556|gb|DB968353.1|DB968353
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATTGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA
EST: gi|23727320|gb|BU761687.1|BU761687
EST:     CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAG                         CCCCAAATCGAAAGTGGTGACAAAA
genomic: CATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattc ... aatactgcagCCCCAAATTGAAAGTGGTGACAAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTTTGACGGATATGGATATCATGGGACATCATTTGAGCAGATATATCGATGCTACCCAGCTTCCTTTATTGAAAAGgttcggattcttttcaggcattcattgctaatcttgtgtagctacatagatcatagaatgatgaaatgttctgacttttaatttccactttgtggtcata

- - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - GCAGAT