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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGCCCCTCACCGTCTTCGCCGCCACCAAGAAGGCCGTCGCTGTCCTCAAGGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctctcctttccttagcaataatagttttaattataaaatggtgccaaatgcacaataatggaactaactaatgtatcttcaaatgaaacttat...

Basic information

species Glycine max
transcript GLYMA12G08650.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G08650.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os08g44770.2 (Oryza sativa), 5'ss of exon 1
AAGCCCCTCACCGTCTTCGCCGCCACCAAGAAGGCCGTCGCTGTCCTCAAGGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctctcctttccttagcaataatagttttaattataaaatggtgccaaatgcacaataatggaactaactaatgtatcttcaaatgaaacttat-
| | | |||  ||||  || ||||||||||||||||||||| || |||||||| ||||||   || || || |||| ||| |||| ||| || ||| | |||   | | | |||   ||      |  |  || ||||| ||      | |   | |   |  ||    ||||     |  |||  | |||  || |    
AGGGCGCTCGTCGTCGCCGACGCCACCAAGAAGGCCGTCGCCGTGCTCAAGGGCACCTCCCAGGTTGAGGGAGTCGTCACCCTCACCCAGGATGACCAAGgtcactacccacctgctctccttctttctc-ttgtaattttactgccctcctctacgactaccaactagactagaagcttcatcgcctaatttaattggcc

upper sequence: GLYMA12G08650.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv06s0061g00750.t01 (Vitis vinifera), 5'ss of exon 1
AAGCCCCTCACCGTCTTCGCCGCCACCAAGAAGGCCGTCGCTGTCCTCAAGGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctctcctttccttagcaataatagtttta-attataaaatgg-tgccaaatgcacaataatggaactaactaatgtatcttcaaatgaaacttat
||||||||| ||||  |||||| ||||||||| |||||||||||||||||||| |||||| |||| |||||||||| |||  | |  ||||| |||||||||| || || |  ||| || |   ||  |      |  |    |||||  ||  || |    | |  || ||     | |     |||||  |    | |  
AAGCCCCTCTCCGTGGTCGCCGTCACCAAGAAAGCCGTCGCTGTCCTCAAGGGAACCTCCTCCGTTGAAGGCGTCGTCACCTTGAGTCAAGAGGACGATGgttagttctttgattttctgattgattctgtgaccacgtggggaaatgaatgaaaagttaggagttttgtaatgggttgactatgcttcatttcctgcgt--
















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|209704474|gb|BW678417.1|BW678417
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|298186237|gb|HO036870.1|HO036870
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTCAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|298176316|gb|HO023017.1|HO023017
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|298199533|gb|HO042896.1|HO042896
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGGCGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|13125498|gb|BG316068.1|BG316068
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|20812682|gb|BQ297160.1|BQ297160
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|15338249|gb|BI498905.1|BI498905
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|10234755|gb|BE803643.1|BE803643
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|298167696|gb|HO012959.1|HO012959
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|298183453|gb|HO028666.1|HO028666
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|213589887|gb|DB969652.1|DB969652
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|31311151|gb|CD396354.1|CD396354
EST:     CAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: CAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|15813274|gb|BI785549.1|BI785549
EST:     CCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: CCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|6725661|gb|AW310060.1|AW310060
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|20075645|gb|BQ094428.1|BQ094428
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|298198689|gb|HO042052.1|HO042052
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|10842968|gb|BF066325.1|BF066325
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAATAAGACGATG                         GCCCAACGACAGTTTCTGTTAGCATCACTGGCATTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|15203517|gb|BI426285.1|BI426285
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|209722432|gb|BW668734.1|BW668734
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|298181273|gb|HO022712.1|HO022712
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGGAGACGATG                         GCCCGACGACAGTTTTTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|213601162|gb|DB956484.1|DB956484
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|15337749|gb|BI498405.1|BI498405
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|15664273|gb|BI701644.1|BI701644
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|24136621|gb|BU927131.1|BU927131
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|8670432|gb|BE191539.1|BE191539
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|8283837|gb|BE021396.1|BE021396
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
EST: gi|298163596|gb|HO012329.1|HO012329
EST:     GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATG                         GCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG
genomic: GGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctc ... ccatgagtagGCCCGACGACAGTTTCTGTTAGCATCACTGGCCTTACTCCGGGGCTTCATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGCCCCTCACCGTCTTCGCCGCCACCAAGAAGGCCGTCGCTGTCCTCAAGGGGACCTCCGCCGTCGAAGGCGTCGCCACTCTCATCCAAGAAGACGATGgttcgtcctctcctttccttagcaataatagttttaattataaaatggtgccaaatgcacaataatggaactaactaatgtatcttcaaatgaaacttat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgaaa