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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGTGGTCTTTTTGGCTGAGCTATTAGCAACTTGTTTGGGCTCTATTGATCCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAGgtgagatgtgccatggacatgaagtatcacgcatcttggtgtctaccagcaactgatagtgttctttagcag

Basic information

species Oryza sativa
transcript LOC_Os04g41100.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g41100.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G179097_T02 (Zea mays), 5'ss of exon 7
CCGTGGTCTTTTTGGCTGAGCTATTAGCAACTTGTTTGGGCTCTATTGATCCTGACTGTCATGCATCA--------TTCTGAATCTATGAGGTCAGATACACTCTGAGgtgagatgtgccatggacatgaagtatcacg-catcttggtgtctaccagcaactgatagtgttctttagcag
       |||||||||||| |||  |||| |||| |||||  || |   |||| ||||| |||| |||        | |||| |  ||||||| |||||   |||||||||||  |||||||||||||||||||||||  | ||| |||||||| ||||||||||||||||||||||||||
-------CTTTTTGGCTGAACTAGAAGCA-CTTGATTGGGTCCTGTCCGTCCTAACTGTTATGCTTCACACTGAAATCCTGAGTTCATGAGGTTAGATATCTTCTGAGgtgag--gtgccatggacatgaagtatcacatcttctcggtgtctagcagcaactgatagtgttctttagcag

upper sequence: LOC_Os04g41100.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G179097_T08 (Zea mays), 5'ss of exon 7
CCGTGGTCTTTTTGGCTGAGCTATTAGCAACTTGTTTGGGCTCTATTGATCCTGACTGTCATGCATCA--------TTCTGAATCTATGAGGTCAGATACACTCTGAGgtgagatgtgccatggacatgaagtatcacg-catcttggtgtctaccagcaactgatagtgttctttagcag----------------------------------------------------------------
       |||||||||||| |||  |||| |||| |||||  || |   |||| ||||| |||| |||        | |||| |  ||||||| |||||   |||||||||||  |||||||||||||||||||||||  | ||| |||||||| ||||||||||||||||||||||||||                                                                
-------CTTTTTGGCTGAACTAGAAGCA-CTTGATTGGGTCCTGTCCGTCCTAACTGTTATGCTTCACACTGAAATCCTGAGTTCATGAGGTTAGATATCTTCTGAGgtgag--gtgccatggacatgaagtatcacatcttctcggtgtctagcagcaactgatagtgttctttagcaggcttggtaccggtttaaatggataaggtttctccttgtggcccatcatagaaattttgttgcag

upper sequence: LOC_Os04g41100.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G139038_T01 (Zea mays), 5'ss of exon 7
CCGTGGTCTTTTTGGCTGAGCTATTAGCAACTTGTTTGGGCTCTATTGATCCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAGgtgagatgtgccatggacatgaagtatcacg-catcttggtgtctaccagcaactgatagtgttctttagcag
|||||| |||||||||||| |||  || |  |  || |    || |   | || ||||| |||| |||  ||||||| | ||||||||||    |||||||||||  |||||||||||||||||||||||  | ||| |||||||| |||| |||||||||||||||||||||
CCGTGGGCTTTTTGGCTGAACTAAGAGTACTTGATTGGATTCCTGTCCGTACTAACTGTTATGCTTCACCCTGAATCCACGAGGTCAGATGTCTTCTGAGgtgag--gtgccatggacatgaagtatcacatcttctcggtgtctagcagcgactgatagtgttctttagcag

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|44675738|gb|CR289172.1|CR289172
EST:     CCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAG                         C
genomic: CCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAGgtgagatgtg ... tctttagcag-
EST: gi|44675738|gb|CR289172.1|CR289172
EST:     CCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAG                         C
genomic: CCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAGgtgagatgtg ... tctttagcag-
EST: gi|44675738|gb|CR289172.1|CR289172
EST:     CCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAG                         C
genomic: CCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAGgtgagatgtg ... tctttagcag-
EST: gi|29631235|gb|CB636244.1|CB636244
EST:     CCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAG                         GCATGGTGCTGGTTTAAGTTGATAGGTACCTGGCCCATCATAGAAATTTTG
genomic: CCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAGgtgagatgtg ... tctttagcagGCATGGTGCTGGTTTAAGTTGATAGGTACCTGGCCCATCATAGAAATTTTG
EST: gi|29623101|gb|CB628112.1|CB628112
EST:     CCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAG                         GCATGGTGCTGGTTTAAGTTGATAGGTACCTGGCCCATCATAGAAATTTTG
genomic: CCTGACTGTCATGCATCATTCTGAATCTATGAGGTCAGATACACTCTGAGgtgagatgtg ... tctttagcagGCATGGTGCTGGTTTAAGTTGATAGGTACCTGGCCCATCATAGAAATTTTG