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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAATATCTTTAAGTTGGCACAAGGGGAGTACATTGCTCCTGAGAAGATTGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaataaatcattcccacaaattcagtgtgtgtggtcatttgtactagcttgttgatgcttcttttttctttgtag

Basic information

species Glycine max
transcript GLYMA20G28200.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G28200.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os11g04980.1 (Oryza sativa), 5'ss of exon 19
AAGAATATCTTTAAGTTGGCACAAGGGGAGTACATTGCTCCTGAGAAGATTGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaataaatcattcccacaaattcagtgtgtg-tggtcatttgtactagcttgttgatgcttcttttttctttgtag
||||| || || ||||| || ||||| || ||||| ||||| ||||||||||| || || ||||| || ||||| ||| | ||||| |||||| |||||||||   | ||  || ||          | | |  ||  |  | ||||    |   |  |  | ||   |  |||   || ||
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCCGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTTATTGCGCAGTGCTTTATATATGgta---atattcatgatcttatattggttattacgtactaattatttaccatgtatattctaagccgttgatttgaatgcag

upper sequence: GLYMA20G28200.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G176546_T01 (Zea mays), 5'ss of exon 10
AAGAATATCTTTAAGTTGGCACAAGGGGAGTACATTGCTCCTGAGAAGATTGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaataaatcattcccacaaattcagtgtgtg-tggtcatttgta--ctagcttgt--tgatgcttcttttttctttgtag
||||| || || ||||| || ||||| || ||||| ||||| |||||||||||||| || |||||||||||||| ||  | || ||||| ||| |||||||||   | ||  || ||||       ||   | | ||    ||| || |   | ||| |||  | |  ||  | |||   ||| ||
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAAAATGTCTATGCCAAATGCAAGTTCATTGCCCAATGTTTTATATATGgta---atatttatgattct---gtgttggctatatgaccatcagttatggccaagcatgttctaaatctcttgtttcggttgcag

upper sequence: GLYMA20G28200.1 (Glycine max), 5'ss of exon 19
lower sequence: AT3G05970.1 (Arabidopsis thaliana), 5'ss of exon 19
AAGAATATCTTTAAGTTGGCACAAGGGGAGTACATTGCTCCTGAGAAGATTGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaataaatcattcccacaaattcagtgtg-tgtggtcatttgtactagcttgttgatgcttcttttttctttgtag
||||| ||||| || ||||| || |||||||| || ||||| ||||| ||||||||||| ||||||||||||||||||||||  || |||||  |||||||||| | ||  ||| ||    |    ||  || |    |  |  ||| | ||  |    |    | | ||     |||  ||
AAGAACATCTTCAAATTGGCGCAGGGGGAGTATATAGCTCCAGAGAAAATTGAAAACGTCTATGCCAAATGCAAATTTGTGGGCCAGTGCTTCATATATGgtatagtaaacaattatagtaaattgttttgtataacattttgctttatcctttccccatctcacctgttaccaattttcag

upper sequence: GLYMA20G28200.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv05s0020g03080.t01 (Vitis vinifera), 5'ss of exon 19
AAGAATATCTTTAAGTTGGCACAAGGGGAGTACATTGCTCCTGAGAAGATTGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaataaatcattcccacaaattcagtgtgtgtggtcatttgtactagcttgttga-tgcttcttttttctttg-tag
||||| || ||||||||||||||||| |||||||| ||||| ||||| ||||| || |||||||| |||||||||||||| || || |||||||||||||||| | |||   |    |   ||||||    | | | |  || |||      || || ||| ||||| ||| |    || |||
AAGAACATTTTTAAGTTGGCACAAGGAGAGTACATAGCTCCAGAGAAAATTGAGAATGTATATGCTAAATGCAAATTTGTTGCCCAGTGCTTTGTATATGgtaagaaaaatga--gattttacaaatc---tctctttcatctttt------gcctgctgactgcttatttctctgatgatag

upper sequence: GLYMA20G28200.1 (Glycine max), 5'ss of exon 19
lower sequence: PP1S408_23V6.1 (Physcomitrella patens), 5'ss of exon 21
AAGAATATCTTTAAGTTGGCACAAGGGGAGTACATTGCTCCTGAGAAGATTGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaataaatcattcccacaaattcagtgtgtgtggtcatttgtactagct--------tgttgatgcttc----ttttttctttgtag-------
|||||||||||||||||||| ||||| ||||||||||| || |||||||| || || || ||        |    ||  |  | || || |   || ||||||||   ||   | |     |  || ||    | | | ||  | |  || || |        ||| ||||  |     |||||| ||  |         
AAGAATATCTTTAAGTTGGCTCAAGGAGAGTACATTGCCCCGGAGAAGATCGAGAATGTCTACCTTCGCAGTCGTTTCATAACACAGTGTTACATACATGgtatgttcattttttaaatggaggaactcttcatttcttgtggtctaaacaagttgcaactggtgtagatgacttaagatttttttttcatctgaaatga

upper sequence: GLYMA20G28200.1 (Glycine max), 5'ss of exon 19
lower sequence: PP1S33_126V6.1 (Physcomitrella patens), 5'ss of exon 22
AAGAATATCTTTAAGTTGGCACAAGGGGAGTACATTGCTCCTGAGAAGATTGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaataaatcattcccacaaattcagtgtgtgtggtcatttgtactagcttgttgatgcttcttttttctttgtag--------------------
||||||||||| |||||||| || || ||||||||||| || ||||||||||| ||||| ||      | |    ||  | || || |||||| |  |||||  |   ||  |        |   || |  | |   | |||      |   |||||| | ||   |    |  ||  | |                    
AAGAATATCTTCAAGTTGGCTCAGGGAGAGTACATTGCGCCCGAGAAGATTGAGAACGTCTACCTGCGAAGTCGGTTCATTGCACAGTGCTTTATTCATGgtgcgttcattcaattaatggaggcatcccttct-cattgtctcagtcatctgcttgtggttgaaacaccatggttactggggttgtgggtgctttaagag

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|10231873|gb|BE800761.1|BE800761
EST:     TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATG                         GTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
genomic: TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaat ... ttctttgtagGTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
EST: gi|151400349|gb|EV270163.1|EV270163
EST:     TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATG                         GTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
genomic: TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaat ... ttctttgtagGTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
EST: gi|6482302|gb|AW201571.1|AW201571
EST:     TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATG                         GTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
genomic: TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaat ... ttctttgtagGTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
EST: gi|21479843|gb|BQ576526.1|BQ576526
EST:     TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATG                         GTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
genomic: TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaat ... ttctttgtagGTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
EST: gi|21676461|gb|BQ628812.1|BQ628812
EST:     TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATG                         GTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
genomic: TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaat ... ttctttgtagGTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
EST: gi|192324238|gb|FK018209.1|FK018209
EST:     AAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATG                         GTGATAGCCTAAATGCTTCTTTTGGTAGCTGTTTGTCTCTGTGGATCATGA
genomic: AAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaat ... ttctttgtagGTGATAGCCTAAATGCTTC-TTTGGTAGCTG-TTGTCTCTGTGGATCATGA
EST: gi|6481851|gb|AW201122.1|AW201122
EST:     TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATG                         GTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA
genomic: TGAAAACGTATATGCCAAATGCAAATTTGTGGCGCAATGCTTTGTATATGgtatggaaat ... ttctttgtagGTGATAGCCTAAATGCTTCTTTGGTAGCTGTTGTCTCTGTGGATCATGATA