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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacag

Basic information

species Oryza sativa
transcript LOC_Os03g22420.2
intron # 22
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GRMZM2G438355_T01 (Zea mays), 5'ss of exon 1
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacag
                         |||||||| || |||||||| |  |||| || ||| ||||||||||| ||||| ||||| || ||||||||||||||| ||  | |   |||     |   |   | |    ||   | |||| |   ||||| ||| |   | |    |        
-------------------------ATGCTTGCTAAGGCTGTGGCAAATGAGGTTGATGCTAATTTCATAAACATATCGATGTCAAGTATCTCTTCAAAGgtacttatcgattagatgagcctctatttttaggca-gtacatacattatat-catct-aaataacctattttctag------

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GRMZM2G042074_T01 (Zea mays), 5'ss of exon 22
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtatttt---actaaatga-ttgctattagtccatggttttgtttttgcattttgggcatctgaaacat-tgtgtaccattaccacag
|||||| |||||||| ||||||||||||||||| || |||||||| || ||||||||||| ||||||||||| ||||| ||||| |||||||||||||||||| ||    | |  |  |    || ||  |     |||  || | |||||| | | ||||| ||  |  | | | |||         
TGGCCCACCTGGTACTGGAAAGACAATGCTTGCTAAGGCTGTGGCAACTGAGGCTGGTGCTAATTTCATAAACATATCGATGTCAAGCATCTCTTCAAAGgtacttatcaattggacaagcctctgttttttggcagttgagtatctgcattatag-catctaaataacctattttccag--------

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GLYMA06G17940.1 (Glycine max), 5'ss of exon 22
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtattttactaaatgattgctattagtccatggttttgtttttgcatt--ttgggcatctgaa--acattgtgtacca---ttaccacag
||| || ||||| ||||| |||||||||||||| || || || ||||| || |||||||| |||||||| || || || ||||| || ||| | || |||||    || |   | | ||   ||| |  |  || |   || |   ||  |||  ||| | ||   |||| | | ||    || |  |||
TGGTCCCCCTGGAACAGGTAAGACAATGCTTGCAAAGGCAGTTGCTACCGAAGCTGGTGCAAATTTCATCAACATTTCCATGTCAAGTATCACATCTAAGgttagata-tgcttcactgggtttattttaatgtctctgttatcagttagttgttcattttaactgcattcttttcccattttgcttcag

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GLYMA10G02400.1 (Glycine max), 5'ss of exon 21
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtattt---tactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccatt-accacag
||| || ||||| |||||||| ||||||||||| || ||||| || || || ||||| || |||||||| || || |||||||| |||||  |||||||||||||    |  ||| | | |  | || ||   ||  |||  || |    ||  |  |   |||| ||   ||    ||     |||
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtattaatgttgtaagttacttttttttgtg-gtgtatttccttgtatgcttcagtgacaagaaaaatatggttttgtttgttgcag

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 18
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtattt-tactaaatgattgctattagtccatggttttgtttttgcattttgggcatc---tga-aacattgtgtaccattaccacag
|||||| ||||| |||||||| ||||||||||| || |||||||| || || ||||| || ||||| || || || |||||||| |||||  | || ||||||||  |   ||||     || ||   |  |   | ||| ||| | |||    |||    ||| |  ||  |||    ||    |||
TGGCCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTGGCAACTGAAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACATCCAAGgtattagttgcaaatttaaactgttttgctcta-ctctgtattttcctttcattcattaagtgacaggatattgtttttttgttgcag

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GLYMA04G37050.1 (Glycine max), 5'ss of exon 5
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgt--attttactaaat--gattgctatta--gtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacag
||| || ||||| ||||| |||||||||||||| || || || ||||| || |||||||| |||||||| || || || ||||| || ||| | || |||||  | ||| ||  |   | ||  | |||  |||  || | |   ||     ||      |||||     || |      || |  |||
TGGTCCCCCTGGAACAGGTAAGACAATGCTTGCAAAGGCAGTTGCTACCGAAGCTGGTGCAAATTTCATCAACATTTCCATGTCAAGTATCACATCTAAGgttaaatttgcttcactgggtttattttaatgtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgcttcag

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtat---tttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacag
||| || ||||| |||||||| ||||||||||| || ||||| || || || ||||| || |||||||| || || |||||||| |||||  ||||||||||||   | |  ||||| | |  | ||  |   |  ||   | | ||| |      ||    |||||| || |    ||    |||
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggt-tttgtttgttgcag

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GLYMA10G02410.1 (Glycine max), 5'ss of exon 18
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtatt--ttactaaat-gattgctattagtcca---tggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacag
|||||| ||||| |||||||| ||||||||||| || ||||| || || || ||||| || ||||| || || || |||||||| |||||  | || ||||||||  || | || |  |    | ||  || |   ||  |||  |||      |  |  |   || | ||  |||    ||    |||
TGGCCCTCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACGTCCAAGgtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcag

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: AT1G02890.1 (Arabidopsis thaliana), 5'ss of exon 21
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtatt--ttact--aaatgattgctattagtccatggttttgtttttgcattttgggc--atctgaaacattgtgtaccattaccacag
||| ||||||||||| || ||||||||||| || |||||||| || || |||||||| || || || || ||||| |||||||| |||||  |||||||||||||  | |||  ||| | || |  | | || || || || | ||||   || |     |  ||| |  | |||||            
TGGACCGCCTGGTACGGGGAAGACAATGCTGGCAAAAGCTGTAGCAACCGAGGCTGGGGCAAACTTTATCAATATTTCAATGTCCAGCATTACTTCAAAGgtattgatcacttaaaacggttacc-tgactctatagtgttttctttgagattagacttgacttgagatttcgtgtag-----------

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: AT1G02890.2 (Arabidopsis thaliana), 5'ss of exon 21
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtatt--ttact--aaatgattgctattagtccatggttttgtttttgcattttgggc--atctgaaacattgtgtaccattaccacag------------
||| ||||||||||| || ||||||||||| || |||||||| || || |||||||| || || || || ||||| |||||||| |||||  |||||||||||||  | |||  ||| | || |  | | || || || || | ||||   || |     |  ||| |  | |||||    |                   
TGGACCGCCTGGTACGGGGAAGACAATGCTGGCAAAAGCTGTAGCAACCGAGGCTGGGGCAAACTTTATCAATATTTCAATGTCCAGCATTACTTCAAAGgtattgatcacttaaaacggttacc-tgactctatagtgttttctttgagattagacttgacttgagatttcgtgtagtggtttggtgagggagagaagta

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 22
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtatt--ttactaaatgattgctattagtccatggttttgtttttgcattttg--ggcatctgaaacattgtgtaccattaccacag--------------
|||||| ||||| ||||| |||||||||||||| || ||||| ||||| || |||||||| || ||||| ||||| |||||||| |||||| | || |||||  |  ||  ||| |   | || ||  || ||   ||  | | |  | |  |  |  || |      || |   |   |  | ||               
TGGCCCCCCTGGAACAGGCAAGACAATGCTTGCTAAGGCTGTTGCTACTGAAGCTGGTGCAAACTTCATCAATATTTCAATGTCAAGCATCACATCTAAGgttatcattgataagtagcttcttttt-tctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcag

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 5'ss of exon 21
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacag------
||| || ||||| || ||||| ||||||||||| || || || || || ||||| ||||| ||||| || || ||||||||||| || ||| |||||||||||  |   |  || |      | | |     | | |  |||||||  |   |  |   ||| |||    | | | |            
TGGGCCTCCTGGGACTGGAAAAACAATGCTTGCGAAGGCGGTTGCAACTGAGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgtaaatatgtgcatcaaaatggtgactatgcagctct-cttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcag

upper sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
lower sequence: EFJ31084 (Selaginella moellendorffii), 5'ss of exon 9
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtat---tttactaaatgattgctatta-gtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacag
||| || || || || || ||||| |||||||| || || || ||||||||||||||||| |||||||| ||||| |||||||| |  ||  | || || |||     |||| |  |||| |   | | ||  |  ||||| ||| | |                                      
TGGTCCTCCAGGAACTGGTAAGACCATGCTTGCTAAGGCGGTTGCTACAGAGGCTGGTGCAAATTTCATCAATATTTCAATGTCCACAATTGCATCTAAAgtaagcacttaccacgtgatagtgttcaagtttaccgttttctttcttcgcag----------------------------------

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|58688470|gb|CK077157.1|CK077157
EST:     AGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAG                         TGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGC
genomic: AGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtattttact ... attaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGC