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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTGCTCAAGGATGATAAGTCGGAGGGCTGTCAGCTGTTTTTGGTTGAGTGAACTGAACTTGTGGATTGATGGTGTATGCAAGGTGCCATCATGTCAGAGgtagatcgtcttttctcctgtttatttccctcgagagtaagcgatggcagtgttaccagggcacttcaacctaatgttgacatttagtcttggttaggaa...

Basic information

species Oryza sativa
transcript LOC_Os01g68320.4
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g68320.4 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G362850_T01 (Zea mays), 5'ss of exon 9
AGTGCTCAAGGATGATAAGTCGGAGGGCTGTCAGCTGTTTTTGGTTGAGTGAACTGAACTTGTGGATTGATGGTGTATGCAAG-GTGCCATCATGTCAGAGgtagatcgtcttttctcctgtttatttccctcgagagtaagcgatggcagtgttaccagggcacttcaacctaatgttgac-atttagtcttggttaggaa-----
   | | |   |    |||  | | ||   |  | | ||   |  |    || | | |   |     | ||||      ||   ||| || || ||  |   | |   |    ||    ||  ||||    |   |  ||   | |   |||| | | ||||   |    |  |  ||||   |  |    ||||||  |       
---GGTGATAAAGCTCAAGCTGAACGGGACTATGTTCTTGCAGAGTTTAAGAGCGGCAAGAGCCCCATAATGGCTGCCACAGATGTGGCAGCACGT-GGTCTTGgtatgatgatttatttgaatattaggattagg--tagtagttccaagtgct-caagggtgataagtcggagggttgttgagctgcgattggttgagtgaactg

upper sequence: LOC_Os01g68320.4 (Oryza sativa), 5'ss of exon 8
lower sequence: AC217043.3_FGT002 (Zea mays), 5'ss of exon 6
AGTGCTCAAGGATGATAAGTCGGAGGGCTGTCAGCTGTTTTTGGTTGAGTGAACTGAACTTGTGGATTGATGGTGTATGCAAGGTGCCATCATGTCAGAGgtagatcgtcttttctcctgtttatttccctcgagagtaagcgatggcagtgttaccagggcacttcaacctaatgttgacatttagtcttggttaggaa
   | | |||   |  |||   |     |    ||||     | |   |      |   |  |||  ||||| | |||   |         || | ||   ||| | ||  || |   ||         ||| ||  | |    | | || |||     |   |       | | ||  |||                  
--AGTTTAAGAGCGGCAAG--AGCCCTATAATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgatttatttga---------atattaggattaggtagtagttccaagtg---------ctcaaggatgataagtcggagggttgttgagctgcgattggttga-gtgaacag-----------------

upper sequence: LOC_Os01g68320.4 (Oryza sativa), 5'ss of exon 8
lower sequence: AC209019.3_FGT003 (Zea mays), 5'ss of exon 1
AGTGCTCAAGGATGATAAGTCGGAGGGCTGTCAGCTGTTTTTGGTTGAGTGAACTGAACTTGTGGATTGATGGTGTATGCAAGGTGCCATCATGTCAGAGgtagatcgtcttttctcctgtttatttccctcgagagtaagcgatggcagtgttaccagggcacttcaacctaatgttgacatttagtcttggttaggaa
                                 ||||     | |   |      |   |  |||  ||||| | |||   |         || | ||   ||| | ||  || |   ||         ||| ||  | |    | | || |||        ||| | |     ||       |                
------------------------------ATGGCTGCCACAGATGTGGCAGCACGTGGTCTTGgtatgatgatttatttga---------atattaggattaggtagtagttccaagtg---------ctcaaggatgataagtcggagggttgttga---actgcgattggttgagtgagctg---------------

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|14980905|gb|BI305583.1|BI305583
EST:     GAACTGAACTTGTGGATTGATGGTGTATGCAAGGTGCCATCATGTCAGAG                         ATGTCAAGGATATTAAGTGTGTGATAAATTTTGATTTTCCAACAACTCTTG
genomic: GAACTGAACTTGTGGATTGATGGTGTATGCAAGGTGCCATCATGTCAGAGgtagatcgtc ... atttttgcagATGTCAAGGATATTAAGTGTGTGATAAATTTTGATTTTCCAACAACTCTTG
EST: gi|25801286|gb|CA757247.1|CA757247
EST:     TGTATGCAAGGTGCCATCATGTCAGAG                         ATGTCAAGGATATTAAGTGTGTGATAAATTTTGATTTTCCAACAACTCTTG
genomic: TGTATGCAAGGTGCCATCATGTCAGAGgtagatcgtc ... atttttgcagATGTCAAGGATATTAAGTGTGTGATAAATTTTGATTTTCCAACAACTCTTG
EST: gi|14981748|gb|BI306426.1|BI306426
EST:     GAACTGAACTTGTGGATTGATGGTGTATGCAAGGTGCCATCATGTCAGAG                         ATGTCAAGGATATTAAGTGTGTGATAAATTTTGATTTTCCAACAACTCTTG
genomic: GAACTGAACTTGTGGATTGATGGTGTATGCAAGGTGCCATCATGTCAGAGgtagatcgtc ... atttttgcagATGTCAAGGATATTAAGTGTGTGATAAATTTTGATTTTCCAACAACTCTTG