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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGCAAGGAAGAAGGCTGTTGATGCCTCTGTGGATTTGAGTGCCATAGCAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtctgccctttattaatgttgcatgttgcatccctttaccattgttgtatgttgtgtttatattttttttttttttttttttgaaccgccaaaa...

Basic information

species Glycine max
transcript GLYMA08G19920.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19920.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv01s0010g02600.t01 (Vitis vinifera), 5'ss of exon 8
TCTTGCAAGGAAGAAGGCTGTTGATGCCTCTGTGGATTTGAGTGCCATAGCAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgt-ctgccctttattaatgttgcatgttgcatccctttaccattgttgtatgtt---gtgtttatattttttt-----tt------tttttttttttgaaccgccaaaa----------------------------------------
|||||| ||||||||| || | ||||||  ||||||||||| |||||||| | | |  || |||||| | || |||||||| || |||||| ||||| ||||||||   || | |  ||    | |||| |   || |    |  || || || ||||||    |||||| ||  || |     ||      || || ||| |     |     |                                        
TCTTGCTAGGAAGAAGCCTATAGATGCCAGTGTGGATTTGATTGCCATAGGACAGAAAGAGGCTTGTAACAATCTAAGTGGGGCTGATCTTTCTGCACTGgtttgtccacttctccctagatctcttgccttgggcttgaactggccctttttctatgtttatatgtttagatgcttgtggcaattgggggattcttctttgttgttggtgtggatgtggttgggttttatctaatctgttaaaatgattgtcag
















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|193402844|gb|FK367222.1|FK367222
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|21889596|gb|BQ742809.1|BQ742809
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|298192475|gb|HO036557.1|HO036557
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|23730467|gb|BU763322.1|BU763322
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|208170653|gb|GD967480.1|GD967480
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTT
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTT
EST: gi|193515197|gb|FK473753.1|FK473753
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|193398522|gb|FK363002.1|FK363002
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAG
EST: gi|8669605|gb|BE190712.1|BE190712
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCGATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|193345514|gb|FK313681.1|FK313681
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGA
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGA
EST: gi|22926991|gb|BU544130.1|BU544130
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|193556716|gb|FK511925.1|FK511925
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCCTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|207807775|gb|GD778124.1|GD778124
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|208167263|gb|GD963053.1|GD963053
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|207783843|gb|GD756823.1|GD756823
EST:     AAAAATGGAAGCTTGTGAAAACCTAAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCGATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: AAAAATGGAAGCTTGTGAAAACCTAA-GTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|193709507|gb|FK642513.1|FK642513
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|193428259|gb|FK397225.1|FK397225
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|207778366|gb|GD750105.1|GD750105
EST:     AAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATTAANGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: AAAAA-TGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|208070437|gb|GD872542.1|GD872542
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|208078527|gb|GD874463.1|GD874463
EST:     AAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: AAAAA-TGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|23730684|gb|BU763437.1|BU763437
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|208057618|gb|GD851713.1|GD851713
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|57574066|gb|CX547041.1|CX547041
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|193673435|gb|FK614776.1|FK614776
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|209722218|gb|BW659356.1|BW659356
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|298186613|gb|HO037246.1|HO037246
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
EST: gi|23733373|gb|BU764883.1|BU764883
EST:     CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTG                         ATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG
genomic: CAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtct ... gactttacagATGAATGAAGCAGCAATGGCTGCTCTTGAAGAGAGATTGACCTCTATTGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTTGCAAGGAAGAAGGCTGTTGATGCCTCTGTGGATTTGAGTGCCATAGCAAAAATGGAAGCTTGTGAAAACCTAAGTGGCGCAGATCTTGCTGCATTGgtttgtgtctgccctttattaatgttgcatgttgcatccctttaccattgttgtatgttgtgtttatattttttttttttttttttttgaaccgccaaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC