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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagttacacttattgtcttcttttatatgtaactaaaagtgcttttatgtgtaattgtgttgcattatgttgagtgttttgattaaacctaatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATATATCTGTCCTGAGCAACATGCGGCAGTTTGTGAAATATAGTCGATTCAA

Basic information

species Glycine max
transcript GLYMA16G23870.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g03410.2 (Oryza sativa), 3'ss of exon 7
aagttacacttattgtcttcttttatatgtaactaaaagtgcttttatgtgtaattgtgttgcatta-tgttgagtgttttgattaaacct-aatat-ttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATATATCTGTCCTGAGCAACATGCGGCAGTTTGTGAAATATAGTCGATTCAA
  || |         |||  | | | ||     ||| |      |  ||  |  | ||      | | |  | | |||  || |||  | |  |||| || ||| ||||||||||| |||||||||||||||||||  ||||| ||| |||||||||||||  ||  ||||||||| |||||||| || || || || || ||
--gtaagttcctacatctaatctaagatagtcttaatacaatagtagtgaatcttcgtcagctgtcaatccttactgtcctgtttatgctttgatatgtttagCGCATCCATGGGTAAGAGAAGGAGGAGAAGCATCTGAGATCCCTGTTGATATATCTGTATTGTCCAACATGCGTCAGTTTGTCAAGTACAGCCGTTTTAA

upper sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 7
aagttacacttattgtcttcttttatatgtaactaaaagtgcttttatgtgtaattgtgttgcattatgt-tgagtgttttgattaaacctaatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATATATCTGTCCTGAGCAACATGCGGCAGTTTGTGAAATATAGTCGATTCAA
              ||   | |||  |    | |  || |  |||| |   ||  | |  ||   | | | | ||  || ||  |   | |  |  | ||||||||||||||||||||||||||||||| ||||  |||||||| || || |||||||| |||| ||||||||| ||||||||||||| ||| ||  | ||
--------------gtaagcgttttgacaccattttaaatcattttgttcttatcttttctgatctttctgtaaggattgtggattttcttggt--tgcagCACATCCATGGGTTAGAGAAGGAGGAGATGCATCTGAGATTCCCATAGACATATCTGTTCTGAACAACATGCGTCAGTTTGTGAAATTTAGCCGCCTTAA

upper sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 7
aagttac-acttattgtcttcttttatatgtaactaaaagtgcttttatgtgtaat-tgtgttgcattatgttgagtgttttgattaaacctaa-tatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATATATCTGTCCTGAGCAACATGCGGCAGTTTGTGAAATATAGTCGATTCAA
  ||||  |  | |  |||   ||    ||| |       ||| | ||||| |  |   |  ||  ||   || ||  |  ||| |     ||| | |||||||||||||||||||||||||||||||||| || |  |||||||| |||||||| ||||| |||  |||||||||  | ||||| || || ||||  || ||
-ggttattatatgtgatctatgttggactgttat--ggtttgcctctatgttttttgccttctgtgtttgatttagcatcctgactgggaataactttttcagCACATCCATGGGTTAGAGAAGGAGGAGATGCCTCTGAGATTCCGATTGATATTTCTGTTCTGTCCAACATGCGTGAATTTGTCAAGTACAGTCACTTGAA

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|208136736|gb|GD939696.1|GD939696
EST:     ATCCTCGGGCGAGTATTTAACTTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATCCTCGGGCGAG-A-TTAAC-TGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|193420116|gb|FK385554.1|FK385554
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|193718228|gb|FK653036.1|FK653036
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|193682134|gb|FK622910.1|FK622910
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|193573663|gb|FK528351.1|FK528351
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|193432686|gb|FK393406.1|FK393406
EST:     GGCGAGATTAACTGTCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: GGCGAGATTAACTG-CTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|207843720|gb|GD813905.1|GD813905
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|193546146|gb|FK502323.1|FK502323
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|193364409|gb|FK328914.1|FK328914
EST:     GGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: GGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|208217317|gb|GE010351.1|GE010351
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|208183682|gb|GD982898.1|GD982898
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|193631037|gb|FK579088.1|FK579088
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|207825702|gb|GD797329.1|GD797329
EST:     ATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|193567952|gb|FK526529.1|FK526529
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|193544365|gb|FK500310.1|FK500310
EST:     ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATTACTAGTAAAGGATCCTCGGGCGAGATTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
EST: gi|208085782|gb|GD880636.1|GD880636
EST:     ATCCTCGGGCGAGTATTTAACTGCTGCTCAAGCTTTAT                         CACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA
genomic: ATCCTCGGGCGAG-A-TTAACTGCTGCTCAAGCTTTATgtatgtatca ... aatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtgtaattgtgttgcattatgttgagtgttttgattaaacctaatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATATATCTGTCCTGAGCAACATGCGGCAGTTTGTGAAATATAGTCGATTCAA
                                         acctaat  putative branch site (score: 3)
                               ttttgattaaacctaa  TA-rich tract