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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAAGACGACATCACCGAGGAAGTATTTTGTCCGGCCGAACGCGAGCATCATCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacatgtttccagtttggctattttatggcgtgccaagccatggctctctttaggctcattatttggtcttgatgtttggatatatatatctgcattgttgttcggtgatgtag

Basic information

species Oryza sativa
transcript LOC_Os10g40140.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g40140.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G171406_T06 (Zea mays), 5'ss of exon 3
GTCAAGACGACATCACCGAGGAAGTATTTTGTCCGGCCGAACGCGAGCATCATCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacatgtttccagtttggctattttatggcgtgccaagccatggctctctttaggctcattatttggtcttgatgtttggatatatatatctgcattgttgttcggtga-tgtag
||||| || ||||| |||||||||||||| ||||||||||||||||||||| |||||||||||||||||||||||||||| |||||  || ||||||    | | | ||     |   ||   |||     |   | || || |    || ||   |   ||||||  | |   |  || |  |    |  || |  |  ||
GTCAAAACAACATCGCCGAGGAAGTATTTCGTCCGGCCGAACGCGAGCATCGTCCAGCCATGGGATTCTTGCACAATAACGAgtaagcacctgtttctccatggaccatg----gctatgtttagc---atcctccgtttggatttcgatgtg---tgagtgtttgtgtctccctgccttctctcccatctggggggtacag

upper sequence: LOC_Os10g40140.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G171406_T02 (Zea mays), 5'ss of exon 3
------------------GTCAAGACGACATCACCGAGGAAGTATTTTGTCCGGCCGAACGCGAGCATCATCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacatgtttccagtttggctattttatggcgtgccaagccatggctctctttaggctcattatttggtcttgatgtttggatatatatatctgcattgttgttcggtga-tgtag
                  ||||| || ||||| |||||||||||||| ||||||||||||||||||||| |||||||||||||||||||||||||||| |||||  || ||||||    | | | ||     |   ||   |||     |   | || || |    || ||   |   ||||||  | |   |  || |  |    |  || |  |  ||
TGCCCCATTTATTTTCAGGTCAAAACAACATCGCCGAGGAAGTATTTCGTCCGGCCGAACGCGAGCATCGTCCAGCCATGGGATTCTTGCACAATAACGAgtaagcacctgtttctccatggaccatg----gctatgtttagc---atcctccgtttggatttcgatgtg---tgagtgtttgtgtctccctgccttctctcccatctggggggtacag

upper sequence: LOC_Os10g40140.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G074173_T01 (Zea mays), 5'ss of exon 4
GTCAAGACGACATCACCGAGGAAGTATTTTGTCCGGCCGAACGCGAGCATCATCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacatgtttccagtttggctattttatggcgtgccaagccatggctctctttaggctcattatttggtcttgatgtttggatatatatatctgcattgttgttcggtgatgtag
||||| ||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||| |||||| |||     || | ||  |   |  ||||  |            |   | || || |    || ||   |   ||||||  |   | |    || ||  | |  || | |  ||
GTCAAAACGACATCACCGAGGAAGTATTTTGTCCGGCCGAACGCGAGCATCGTCCAGCCATGGGATTCTTGCACAATAACGAgtaaaaaca-----cctgcttctcctctccatggttttttgtttaggatcctccgtttggttttcgatgtg---taagtgtttg--tgcgtctccacgccttcctatctgggggtacag

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|88400668|gb|CI596089.1|CI596089
EST:     CCGGCCGAACGCGAGCATCATCCAGCCATGGGATTCTTGCACAATAACAA                         TTACGCTCCAGGGGCAGAAAGAGTACCCACCAGATATGCAATGCAAGGATA
genomic: CCGGCCGAACGCGAGCATCATCCAGCCATGGGATTCTTGCACAATAACAAgtaaatacat ... ggtgatgtagTTACGCTCCAGGCGCAGAAAGAGTACCCACCAGATATGCAATGCAAGGATA