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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttcttccaggtagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgctttttcag

Basic information

species Glycine max
transcript GLYMA07G28990.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G28990.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 5'ss of exon 4
ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttcttccaggtagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgctttttcag
||  |||||||  |  | || ||  ||||  | || || ||||| || || |||||||||||||| || |||||||| ||||||||||||||||   | | |  | ||      ||||    | | ||     |||      ||   ||  |  || | |  | |||   ||| |   | |                                             
ATACTTCAACATGTGCTTCTAGATATGCCCGGGCTCGCATTCTTCACGACGTATGCACTTTTGGTGCTCTTCTGGGCCGAGATTTATTATCAGgt--gctaggctggtttgatctttgtagttccctgtgacatttcatcagtgcctttagcacctcctaatttgtgaaattttccactag---------------------------------------------

upper sequence: GLYMA07G28990.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g02850.2 (Oryza sativa), 5'ss of exon 4
ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttcttccaggtagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgctttttcag
 |  |||||||  |  |  ||||  | ||| | ||||| ||||| ||||| ||||| || || || || ||||||||||||||||| |||||||  ||||| | ||| | |  ||||         |||||   ||| | | || | | || || |||    | ||   |  ||    ||| |                                           
GTATTTCAACATGTGCTCATTGATTTTCCGGGGCTTGCATTCTTCACAACCTATGCTCTGTTAGTGCTCTTCTGGGCTGAGATTTACTATCAGgttagttttacttg-gatatattt---------tggtt---ttgtcccatg-ggtgtttttgttctcattggttcatgatggcatttgttag-----------------------------------------

upper sequence: GLYMA07G28990.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G003076_T02 (Zea mays), 5'ss of exon 4
ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttcttccaggtagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgctttttcag
||  | |||||  |  | || ||  ||||  | ||||| ||||| || |||||||||||||| || || ||||||||||||||||||||||||| |   ||  ||| ||   |  |||   ||  || |||   ||| |     || | | | ||||  |  |  ||| |  || |   | |                                            
ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgta---tttctttttgtctctgttggacctctattgtt---ttgtcaatgttgttgtgcctctt--aatttttgt-tcctgttctctag--------------------------------------------

upper sequence: GLYMA07G28990.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G426306_T01 (Zea mays), 5'ss of exon 5
ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttcttccaggtagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgctttttcag
||  | |||||  |  | || ||  ||||  | ||||| ||||| || |||||||||||||| || || ||||||||||||||||||||||||| |  |||  |||    |   | || |    |    ||| |||| |     || | | | ||||  |  |  ||| |  || |   | |                                            
ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAGgta--tttccttt----tatctctgttagacctctattgttttgtcaatgttgttgtgcctctt--aatttttgt-tcctgttctctag--------------------------------------------

upper sequence: GLYMA07G28990.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G055462_T01 (Zea mays), 5'ss of exon 5
-----ATTGTTCAACACATCTTGCTTGACGTGCC--GAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttcttccaggtagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgctttttcag
     ||  | |||||  |  | || ||  ||||  |  | |||| ||||| || |||||||||||||| || || ||||||||||||||||||||||| | |   ||  ||| ||   |  |||   ||  || |||   ||| |     || | | | ||||  |  |  ||| |  || |   | |                                            
CTCAGATAATACAACATGTGCTTCTGGATATGCCCGGGCTTTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAAgta---tttctttttgtctctgttggacctctattgtt---ttgtcaatgttgttgtgcctctt--aatttttgt-tcctgttctctag--------------------------------------------

upper sequence: GLYMA07G28990.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G174286_T03 (Zea mays), 5'ss of exon 5
ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttcttccaggtagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgctttttcag
||  | || ||  |  | || ||  ||||  | ||||| ||||| ||||||||||||||| | || || |||||||| |||||||||||||||| |   | | |||||     ||   | |||  || |||   ||        ||   |||||  |    ||    |||| ||  |                                                 
ATAATACAGCATGTGCTTCTAGATATGCCTGGGCTTGCATTCTTCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtac-ctcgttttgtctctgatagacctctctattgttttgttaatgttgttgcgcttcttaatttttgtt-catgttctgtag-------------------------------------------------

upper sequence: GLYMA07G28990.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G02180.1 (Arabidopsis thaliana), 5'ss of exon 4
ATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttgatttgtggtgcatttgcttctacatggttggtttgcctcctgtgattttcttcttccaggtagtgtgttttgctgattggttttgatgggctgattactgcctcggtgttaaatgctttttcag
||| | ||||| |||||||||||  | || |||||||||||||| || || ||||| ||| |||| || ||||||||||| ||||||||||||| |  ||  | |     |  ||  | ||||   |  |||      || || || ||||  | ||  |  ||      |||  |||||||                                            
ATTCTGCAACATATCTTGCTTGATATTCCAAGTCTTGCTTTCTTCACCACCTATGCTCTTCTGGTTCTTTTCTGGGCTGAAATTTATTATCAGgtagtttctaatgagtatctatgggtttcttttt--ttgtcaatgcttctttggttttgatattttacttaacactcttt--tgattggacag----------------------------------------

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|17400364|gb|BM177146.1|BM177146
EST:     TTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG                         GCACGTGCTGTATCAACTGATGGGCTGAAACCAAGGTTCTATACTATTAAT
genomic: TTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttga ... gctttttcagGCACGTGCTGTATCAACTGATGGGCTGAAACCAAGTTTCTATACTATTAAT
EST: gi|19936698|gb|BQ080978.1|BQ080978
EST:     TTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG                         GCACGTGCTGTATCAACTGATGGGCTGAAACCAAGTTTCTATACTATTAAT
genomic: TTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttga ... gctttttcagGCACGTGCTGTATCAACTGATGGGCTGAAACCAAGTTTCTATACTATTAAT
EST: gi|209712879|gb|BW679156.1|BW679156
EST:     TTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG                         GCACGTGCTGTATCAACTGATGGGCTGAAACCAAGTTTCTATACTATTAAT
genomic: TTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAGgcaagtttga ... gctttttcagGCACGTGCTGTATCAACTGATGGGCTGAAACCAAGTTTCTATACTATTAAT