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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTACATCCTCCTCCTCTTCTTCGCCTGGCTGCTCGTCCTCTCCGTCTCCGCCTGCTCCCCCGGGATCGCGTGGACCGTCGTCAACCTCGCCCACTTCGCCgtacgtcccgcctcgccccccgattcattcatccatccatccattcattgacggcgagtttgctccttctttcattagtccgatccgttcttgattagcg...

Basic information

species Oryza sativa
transcript LOC_Os07g26940.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g26940.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G044720_T01 (Zea mays), 5'ss of exon 1
CTACATCCTCCTCCTCTTCTTCGCCTGGCTGCTCGTCCTCTCCGTCTCCGCCTGCTCCCCCGGGATCGCGTGGACCGTCGTCAACCTCGCCCACTTCGCCgtacgtcccgcctcgccccccgattcattcatccatccatccattcattgacggcgagtttgctcctt--ctttcattagtccgatccgttcttgatta-gcg---
|||||||||||| ||||||||||| ||||| ||||||||||||||||| |  |||||||||||    || ||||| ||||| |||||||| |||||||||||  || ||    | ||| |  ||||  ||  |  ||| ||      |  || | | |||||||      |  |   | |  |||||   |  |||||  |||   
CTACATCCTCCTGCTCTTCTTCGCTTGGCTCCTCGTCCTCTCCGTCTCTGGTTGCTCCCCCGGAGCAGCCTGGACGGTCGTAAACCTCGCGCACTTCGCCgtgagttcc----caccctct-attccgtccccagtccctcgccctttctactg-gggtttgcttacgagcggttgctcgcgcgatcgacttctgattttgcgcat

upper sequence: LOC_Os07g26940.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G064898_T02 (Zea mays), 5'ss of exon 1
CTACATCCTCCTCCTCTTCTTCGCCTGGCTGCTCGTCCTCTCCGTCTCCGCCTGCTCCCCCGGGATCGCGTGGACCGTCGTCAACCTCGCCCACTTCGCCgtacgtcccgcctcgccccccgattcattcatccatccatccattcattgacggcgagtttgctcctt-ctttcattagtccgatccgtt--cttgattagcg
|||||||||| | ||||||||||||||||| ||||||||||||||||| |  |||||||| |||   || |||||||||||||||||||| |||||||||||  |||||  | | |   |   | |     ||| ||   |   | |||    ||  || |     |  ||| | |       |||| |    ||| ||    
CTACATCCTCATGCTCTTCTTCGCCTGGCTTCTCGTCCTCTCCGTCTCTGGTTGCTCCCCGGGGGCAGCCTGGACCGTCGTCAACCTCGCGCACTTCGCCgtgagtccccaccctctatctcgtcc-ccagtccctcgcccttctgattttgcgcatgtctatggatcgcttccgtccactgtatccctagatttggttgt--

upper sequence: LOC_Os07g26940.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA07G05940.1 (Glycine max), 5'ss of exon 1
CTACATCCTCCTCCTCTTCTTCGCCTGGCTGCTCGTCCTCTCCGTCTCCGCCTGCTCCCCCGGGATCGCGTGGACCGTCGTCAACCTCGCCCACTTCGCCgtacgtcccgcctcgcccccc--gattcattcatccatcca--tccattcattgacggcgagtttgctccttctttcattagtccgatccgttcttgattagcg
 ||||||||| |||| |||||  | ||| | ||||| |||||||||| ||  ||||||||||| ||||| |||||| |||| || ||||| ||||| || |||  || | | |    ||     |||  ||| |   | ||  |  |   |||||    |||||       ||||| |||  |    |  ||  ||   |    
TTACATCCTCATCCTTTTCTTTTCTTGGATCCTCGTTCTCTCCGTCTTCGGTTGCTCCCCCGGCATCGCTTGGACCATCGTTAATCTCGCACACTTTGCTgtatctctctctttcttccttttaattatttcctttttacaaataaaaaaattgaaattgagttctgggtgtctttgattttttgatttggtgatttggt----

upper sequence: LOC_Os07g26940.3 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv15s0046g00140.t01 (Vitis vinifera), 5'ss of exon 1
CTACATCCTCCTCCTCTTCTTCGCCTGGCTGCTCGTCCTCTCCGTCTCCGCCTGCTCCCCCGGGATCGCGTGGACCGTCGTCAACCTCGCCCACTTCGCCgtacgtcccgcctcgccccccgattcattcatccatccatccattcattgacggcgagtttgctccttctttcattag--tccgatccgttcttgattagcg
|||||||||| | ||||||||||| ||||| || || |||||| ||| || |||||| || || || |||||||| |||||||| |||  ||||||    ||| ||      ||          ||    ||       |   ||  ||    |    |||| |   | ||  | |    | || |   ||  |||||    
CTACATCCTCATTCTCTTCTTCGCATGGCTCCTTGTTCTCTCCATCTTCGGCTGCTCTCCTGGCATGGCGTGGACAGTCGTCAATCTCTTCCACTTTTTGgtatgttgtttttcttttgatttctctcagattttgggtttttttttttttttgtttttttgttgagttttcaagtgtgtttcggttatttgatgatttt--

upper sequence: LOC_Os07g26940.3 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S123_9V6.1 (Physcomitrella patens), 5'ss of exon 1
CTACATCCTCCTCCTCTTCTTCGCCTGGCTGCTCGTCCTCTCCGTCTCCGCCTGCTCCCCCGGGATCGCGTGGACCGTCGTCAACCTCGCCCACTTCGCCgtacgtcccgcctcgccccccgattcattcatccatccatccattcattgacggcgagtttgctcct-tctttcattagtccgatccgttcttgattagcg-----
 || || ||  |  |||| ||| | |||||   | || ||||||  | |   |||    |||| | ||| ||||| ||||||||||||| |||||||||||||     ||| ||  || | | ||| |   |   |   |   ||    || || |||||||    | |  ||     |   |    | | ||| |   |      
GTATATTCTGATTATCTTGTTCTCGTGGCTCGCCATCGTCTCCGCGTTCCGATGCGATGCCGGAACCGCATGGACTGTCGTCAACCTCGTCCACTTCGCCgtaa----cgcgtc-tcctctgtttcttcgttgtgtatctttgtt-gcggatggggagtttgtaggtgtgatttgagggatgggagtgcttttgctaccccttcgt

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|218487860|gb|FG958482.1|FG958482
EST:     CTGCTCCCCCTGGGATCGCGTGGACCGTCGTCAACCTCGCCCACTTCGCC                         ATCACTTATCACTTCTTCCATTGGAAGAAGGGAACTCCATTTGCTGCTGAT
genomic: CTGCTCCCCC-GGGATCGCGTGGACCGTCGTCAACCTCGCCCACTTCGCCgtacgtcccg ... tttttggcagATCACTTATCACTTCTTCCATTGGAAGAAGGGAACTCCATTTGCTGCTGAT
EST: gi|58688367|gb|CK077054.1|CK077054
EST:     CCTGCTCCCCCGGGATCGCGTGGACCGTCGTCAACCTCGCCCACTTCGCC                         ATCACTTATCACTTCTTCCATTGGAAGAAGGGAACTCCATTTGCTGCTGAT
genomic: CCTGCTCCCCCGGGATCGCGTGGACCGTCGTCAACCTCGCCCACTTCGCCgtacgtcccg ... tttttggcagATCACTTATCACTTCTTCCATTGGAAGAAGGGAACTCCATTTGCTGCTGAT