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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAACGGCGACGTCCGTGAAGTCAATCGCAAGTACTACGATCGCGACGTCTGTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgtaacctttttcttccgttttctcactcctcgttcttcgtttagggcttcatttttttatttatttattccctttttctctgtttccgtttcag

Basic information

species Glycine max
transcript GLYMA09G38430.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G38430.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os03g62640.2 (Oryza sativa), 5'ss of exon 1
TAACGGCGACGTCCGTGAAGTCAATCGCAAGTACTACGATCGCGACGTCTGTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgtaacctttttcttccgttttctcactcctcgttcttcgtt-tagggcttcatttttttatttatttattccctttttctctgtttc-cgtttcag----
 ||||||||||| || || ||||  |||||||||||||| ||||||||||| || |||| ||||| ||| |||||||| ||||| ||||||||| | |||||| | |    ||||    |   || |   |  || ||    |   |||||  | | || ||| ||| ||         |   |||   |  | ||    
CAACGGCGACGTGCGGGAGGTCAGCCGCAAGTACTACGACCGCGACGTCTGCCGCCTCTTCCTCGCCGGCCTCTGCCCCCACGACCTCTTCCAGCTCACGgtaccttcccccttctcagtatccagtatccactcatctccatgatgcttctctgtgttttttttttctttgtgggaggttaatttggtgggtaagcgct

upper sequence: GLYMA09G38430.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os02g39300.1 (Oryza sativa), 5'ss of exon 1
TAACGGCGACGTCCGTGAAGTCAATCGCAAGTACTACGATCGCGACGTCTGTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgtaacctttttcttccgttttctcactcctcgttcttcgtttagggcttcatttttttatttatttattccctttttctctgtttccgtttcag----------------------------------
 ||||||||||| || || ||||  |||||||||||||| ||||||||||| || |||| ||||| ||| |||||||| ||||| || |||||| | || ||    |     | |   | ||   | |||||     ||     | |  |   | | |    | |   ||| |     || |||  ||  |                                     
CAACGGCGACGTGCGGGAGGTCAGCCGCAAGTACTACGACCGCGACGTCTGCCGCCTCTTCCTCGCCGGCCTCTGCCCCCACGACCTGTTCCAGCTCACCgtgcgttccccgtgctactctcgatcccctcg-----cggcggagccccctcctatatccccactccatccatcggattcggttatcgcgtggctgatgtgcgcctgcgttgttttgtttttttgcag

upper sequence: GLYMA09G38430.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G028096_T02 (Zea mays), 5'ss of exon 1
TAACGGCGACGTCCGTGAAGTCAATCGCAAGTACTACGATCGCGACGTCTGTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgta---acctttttcttccgttttctc--actcc---tcgttcttcgtttagggcttc-------atttttttatttatttattcc-ctttttctctgtttccgtttcag-----------------------------
 |||||||| || || || ||||  ||||||||||| |||||||||||||| || |||||||||| ||| |||||||| ||||| ||||||||| | || |||    || | ||   | | |||| |  | |||    | | | |  | |||  | |        || |     ||  ||| |  | |  || || |||||  ||                                  
CAACGGCGATGTACGGGAGGTCAGCCGCAAGTACTATGATCGCGACGTCTGCCGCCTCTACCTCGCCGGCCTCTGCCCCCACGACCTCTTCCAGCTTACCgtacgtgccctgttgccctgctttccctgattccattacctccctaatctagaacgttcgagtagatctgggggttggtttgtcgcgcggttcctgtgtttttgtggagattttttacttttacctgtgtgttttgcag

upper sequence: GLYMA09G38430.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G069916_T04 (Zea mays), 5'ss of exon 1
TAACGGCGACGTCCGTGAAGTCAATCGCAAGTACTACGATCGCGACGTCTGTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgtaacctttttcttccgttttctcactcctcgttcttcgtttagggcttcatttttttatttattta-ttccctttttctctgtttccgtttcag-----
 ||||||||||||   || || |  ||||| |||||||| ||||||||||| || |||| ||||| |||||||||||| ||||| ||||| ||| | |||||| |||  ||  |||  |  |       | |   || | |||||  ||    |||  |  |||  | ||  || |||   | |||   | |        
CAACGGCGACGTCGAGGAGGTGAGCCGCAACTACTACGACCGCGACGTCTGCCGCCTCTTCCTCGCCGGTCTCTGCCCACACGACCTCTTTCAGCTCACGgtatcctcgtttctcccctgacgtttcgttggaattttggttaggttttaccatttcgaaatatgaaattatctatttagttttttgaatatttatctat

upper sequence: GLYMA09G38430.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G118014_T02 (Zea mays), 5'ss of exon 1
TAACGGCGACGTCCGTGAAGTCAATCGCAAGTACTACGATCGCGACGTCTGTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgtaacct--ttttcttccgttttctcactcctcgttcttcgtttagggcttcatttttttatttatttattccctttttctctgtttccg---tttcag-
 ||||||||||||   || || |  ||||| |||||||| ||||||||||| || |||| ||||| ||| || ||||| ||||| ||||||||| | |||||| |||  ||| |  ||   |  |   |    |   ||   |||||  | | ||||   | |    |||     | |  |   |   ||   | |  | 
CAACGGCGACGTCGAGGAGGTGAGCCGCAACTACTACGACCGCGACGTCTGCCGGCTCTTCCTCGCCGGCCTTTGCCCCCACGACCTCTTCCAGCTCACGgtatcctcgtttaccccctgatgtttggtttgtgaattttagttaggtttccgttttgggaataggatatcattatctcatggatgaacggaatgttggg

upper sequence: GLYMA09G38430.1 (Glycine max), 5'ss of exon 1
lower sequence: AT3G03340.1 (Arabidopsis thaliana), 5'ss of exon 1
TAACGGCGACGTCCGTGAAGTCAATCGCAAGTACTACGATCGCGACGTCTGTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgta---accttt---ttcttccgttttctcactc--ctcgttcttcgtttagggcttcatttttttatttatttattccctttttctctgtttccgtttcag
 ||||||||||| |  || || |||||||| |||||||| || || || |||||||| ||| |    ||||||||||||||||| |||||||| || |||||    ||||||   || || |  ||| | |||    |   |||| |  ||      |  |  |||   | |||   |   | || | |||||| | || | 
AAACGGCGACGTTCAGGAGGTGAATCGCAAATACTACGACCGTGATGTGTGTCGTCTTTACTTGTCTGGTCTCTGCCCTCACGATCTCTTCCAATTGACGgtgcttacctttatattttttcagtttattacttagttgtctctttgaataaaaaaaccctaatttcact-tttgagctaatcttttgtgtttctgcttta-

upper sequence: GLYMA09G38430.1 (Glycine max), 5'ss of exon 1
lower sequence: AT5G17440.1 (Arabidopsis thaliana), 5'ss of exon 1
TAACGGCGACGTCCGTGAAGTCAATCGCAAGTACTACGATCGCGACGTCTGTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgtaacctttttcttccgttttctc--actcctcgttcttcgtttagggcttcatttttttatttatttattccctttttctctgt---ttccgtttcag-
 |||||||| |||  ||| ||||||||||| |||||||| ||||| || || ||||| ||||||   ||||||||||||||||| || ||||| || |||||     |||   | | | ||||   |  ||   ||| |   ||     ||   |   |   ||  | |||    | ||          |   ||||   
AAACGGCGATGTCACTGAGGTCAATCGCAAATACTACGACCGCGATGTTTGCCGTCTTTACCTCTCTGGTCTCTGCCCTCACGAGCTTTTCCAATTGACGgttcgtatttatattcatcttcttcgatacccaattcctttcttcttcttttgctcaatggctttctcattagtatcttggaaaaaaacttaatttcctc

upper sequence: GLYMA09G38430.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv04s0023g00800.t01 (Vitis vinifera), 5'ss of exon 1
TAACGGCGACGTCCGTGAAGTCAATCGCAAGTACTACGATCGCGACGTCTGTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgtaacctttttcttccgttttctcactcctcgttcttcgtttagggcttcatttttttatttatttattccctttttctctgtttccgtttcag--------
 |||||||||||||| || || ||| | ||||||||||| || || || ||||| |||| | | ||||| || ||||||||||| ||||||||||| ||||||   || |    |  |  ||     | |  |   | | ||     ||    ||    | | |||  | |         |||       |  |        
AAACGGCGACGTCCGGGAGGTGAATAGGAAGTACTACGACCGAGATGTGTGTCGCCTCTTCTTGGTCGGCCTTTGCCCTCACGAGCTCTTCCAGTTGACGgtactgttctgggactatcctccttgccttgatctgttggttt--ctttagcattggagtctgtttggttctcgagaaagtgtgggaaagtggggggaaaaa

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|18717489|gb|BM522947.1|BM522947
EST:     GTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACG                         AAAATGGATATGGGCCCTTGCCCTAAGGTCCACTCCTTGCAGCTCCGGAAA
genomic: GTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgtaacctttt ... tccgtttcagAAAATGGATATGGGCCCTTGCCCTAAGGTCCACTCCTTGCAGCTCCGGAAA
EST: gi|213611014|gb|DB970941.1|DB970941
EST:     GTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACG                         AAAATGGATATGGGCCCTTGCCCTAAGGTCCACTCCTTGCAGCTCCGGAAA
genomic: GTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgtaacctttt ... tccgtttcagAAAATGGATATGGGCCCTTGCCCTAAGGTCCACTCCTTGCAGCTCCGGAAA
EST: gi|8282927|gb|BE020488.1|BE020488
EST:     GTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACG                         AAAATGGATATGGGCCCTTGCCCTAAGGTCCACTCCTTGCAGCTCCGGAAA
genomic: GTCGTCTCTACCTCGTCGGTCTCTGCCCTCACGAACTCTTCCAGTTAACGgtaacctttt ... tccgtttcagAAAATGGATATGGGCCCTTGCCCTAAGGTCCACTCCTTGCAGCTCCGGAAA