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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAGATGAACCTAGCTGCTGGCATTCAGGTGGCACAATTGGCTCTTAAGCATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttagctatattttgtgctatattgaaattgtattatttgtagttattttgtcttaattatcttgattcatgtttttcag

Basic information

species Glycine max
transcript GLYMA11G08290.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G08290.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv04s0023g03620.t01 (Vitis vinifera), 5'ss of exon 4
GTGAGATGAACCTAGCTGCTGGCATTCAGGTGGCACAATTGGCTCTTAAGCATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttagctata-ttttgtgctatattgaaattgtattatttgtagttattttgtcttaattatcttgattcatgtttttcag
||||||||||| |||| || || || || ||||| |||||||||||||||||||| ||||| |||||||| || || ||||| |||||||||||||||||||| |  |   | |  |||||       ||  | |   ||  | | ||||| ||     | | |  |  |  || ||| ||| |||
GTGAGATGAACTTAGCCGCAGGTATCCAAGTGGCTCAATTGGCTCTTAAGCATCGACAAAACAAAAAGCAGCAACAAAGGATCATTGTCTTTGCTGGAAGgtaggaattcttttgcttttgcatgccttttcattcacatgttctctagttcttgaaattcattatttcttgttaatgcttt-cag
















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|151409810|gb|EV279618.1|EV279618
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|193437556|gb|FK399125.1|FK399125
EST:     TTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: TTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|14258768|gb|BG881676.1|BG881676
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|213600544|gb|DB960092.1|DB960092
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|193656228|gb|FK603316.1|FK603316
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAG
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAG
EST: gi|213605510|gb|DB970667.1|DB970667
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|193512450|gb|FK469046.1|FK469046
EST:     CATCGGC-AAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|298183378|gb|HO028591.1|HO028591
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|298165035|gb|HO011084.1|HO011084
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|193477480|gb|FK443561.1|FK443561
EST:     CATCGGCAAAATAAAAAGCAACAGCGGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGG
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGG
EST: gi|213596699|gb|DB964046.1|DB964046
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|4283205|gb|AI440627.1|AI440627
EST:     ATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTNTGCCTG-AAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAG
genomic: ATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGC-TGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAG
EST: gi|193384865|gb|FK353223.1|FK353223
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTAGA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTT-GA
EST: gi|193366825|gb|FK331511.1|FK331511
EST:     TTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: TTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|298162986|gb|HO011719.1|HO011719
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAACGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|193437518|gb|FK401803.1|FK401803
EST:     TTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: TTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|209715414|gb|BW684698.1|BW684698
EST:     CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|151397896|gb|EV267769.1|EV267769
EST:     CATCGGCAGAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: CATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
EST: gi|193425763|gb|FK391730.1|FK391730
EST:     TTATTGTCTTTGCTGGAAG                         TCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA
genomic: TTATTGTCTTTGCTGGAAGgtatgcttag ... tgtttttcagTCCTGTCAAGCATGAAAAGAAGATGCTGGAGATGATAGGGAGAAAGTTGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGAGATGAACCTAGCTGCTGGCATTCAGGTGGCACAATTGGCTCTTAAGCATCGGCAAAATAAAAAGCAACAGCAGAGGATTATTGTCTTTGCTGGAAGgtatgcttagctatattttgtgctatattgaaattgtattatttgtagttattttgtcttaattatcttgattcatgtttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG