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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAAgtatgcattgttctactttttggaatttttttataaaggaaatgagttccaaacttccaatacttggaattatagatttatgaagtttttactctgcttttcag

Basic information

species Oryza sativa
transcript LOC_Os02g31874.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g31874.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G144254_T06 (Zea mays), 5'ss of exon 4
TCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAAgtatgcattgttctactttttggaatttttttataaaggaaatgagttccaaacttccaatacttggaattatagatttatgaagtttttactctgcttttcag
||||| ||||||||||||||||| || || ||||||||||| ||||| ||||| |||||||| ||||||||||| |||||||||||||||| ||  ||||          | ||| |  ||   | |||||     | | |   | ||| |||||| ||     ||||||| || | || | |||| |||
TCACTACTTGCAGCTCTTGGATCAATCCAGTTTGTGTCCAACATTGCTTTTGCCTACTTTGTTTTGAACAAGACTATTTCAGTGAAgtatgtatgattctc---------actttctggtagctggaatgaaaattacaata--actacatggaatcatgtgactatgaagcttctgctattctttccag

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G477146_T01 (Zea mays), 5'ss of exon 5
TCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAAgtatgcattgttctactttttggaatttttttataaaggaaatgagttccaaacttccaatacttggaattata-gatttatgaagtttttactctgcttttcag
||||| ||||||||||||||||| ||||| ||||| ||||| ||||| ||||| |||||||||||||||||||| |||||||||||||||| ||  ||||          | ||| |  ||   | ||| |    || | ||     || |||||| ||  |||| |||||| |||| |||  |||| |||
TCACTGCTTGCAGCTCTTGGATCAATTCAGTTTGTTTCCAACATTGCTTTTGCCTACTTTGTGTTGAACAAGACTATTTCAGTGAAgtatgtatgtttctg---------actttctcgtagctggaataaaaatcagaatt-----acatggaatcatgtgattaatgaagattttgctcctctttccag

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA16G26550.1 (Glycine max), 5'ss of exon 6
TCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAAgtatgcattgttctactttttggaatttttttataaaggaaatgagttccaaacttccaatacttggaattatagatttatgaagtttttactctgctttt--cag
|||||||||||||| || |||||  |||| ||||| || || ||||| || ||||||||||| |||||||| |   |  |||| ||||||||    ||  |  |      | | ||| |||   |   |   || ||      |  | || |   ||| | | || |    |  ||  |   |||||  |||
TCACTTCTTGCAGCACTAGGATCTGTTCAGTTTGTATCTAACATTGCCTTCGCTTACTTTGTCTTGAACAAAATGGTGACAGTAAAgtatgctaaatttgaactgcgattactgtttcatatttg--tttgttttcactaactctgttctagctgtta-atacttgtagcttaattgatggtcttttatcag

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA02G07510.1 (Glycine max), 5'ss of exon 5
TCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAAgtatgcattgttctactttttggaatttttttataaaggaaatgagttccaaacttccaatacttggaatt---atagatttatgaa--gtttttactctgcttttcag
|||||||||||||| || |||||  |||| ||||| || || ||||| || ||||||||||| |||||||| |   |  |||| ||||||||    ||  |  |      |   ||| ||    |       |  |||   |    ||  || ||||    ||| || ||  |  |  |||  || |        
TCACTTCTTGCAGCGCTGGGATCTGTTCAGTTTGTATCTAACATTGCCTTCGCTTACTTTGTCTTGAACAAAATGGTGACAGTCAAgtatgctaaatttgaactgagattaccgtttcatttttgtttgttttcacaactctgttctagctgtaattcttgtagcttaattgatggcatttgatcag--------

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 5'ss of exon 5
lower sequence: AT3G26670.3 (Arabidopsis thaliana), 5'ss of exon 5
TCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAAgtatgcattgttctactttttggaatttttttataaaggaaatgagttccaaacttccaatacttggaattatagatttatgaagtttttactctgcttttcag
|| ||||| |||||||||||||| ||||||||||| ||||| || |||||||||||  |||| |||||||| |   || | || |||||||||   | |  ||   || ||| |||          |  || || | || |  |    |||  |   |||  ||||  | |  ||               
TCCCTTCTAGCAGCTCTTGGATCCATTCAATTTGTATCCAACATAGCATTTGCTTATGTTGTATTGAACAAAATGGTTACTGTCAAgtatgcaaactac--ctcgctgcaatctttaacatgcattaccgatttactaagtctctgctcttcta---atatctttagtatgccttggtcacag-------

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 5'ss of exon 5
TCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAAgtatgcattgttctactttttggaatttttttataaaggaaatgagttccaaacttccaatacttggaattatagatttatgaagtttttactctgctt---ttcag
|||||||||||||| || ||||| |||||||| || ||||| ||||||||||| ||||| || |||||||| |   | || || |||||||      |||      ||   ||  |||   ||       | |   ||  ||   ||         ||  | |   | || ||   |   |||||   |||||
TCACTTCTTGCAGCCCTGGGATCAATTCAATTCGTTTCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAAgtatgttcaaatctgaag--tgagcttgatttccgaactttgacactgttaatattttgatttccatgtatactgctaagtaaatttgaaatattgcttcttttcag

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|58688305|gb|CK076992.1|CK076992
EST:     TCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGAACATTTCAGTGAA                         AGTCATGGTAGCAACAACATTTATTGTATTTGGCAATATCTTCCTAGTTTC
genomic: TCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAAgtatgcattg ... tgcttttcagAGTCATGGTAGCAACAACATTTATTGTATTTGGCAATATCTTCCTAGTTTC