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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGGCGGCGGAGGACGGCGATGGCGCGGCCGCCGGTGCTCTCCGTCGCGCTTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttcttcttccccccctcaatcccaatctgctcttcattcctcattccatggaagcgtatatatatcgagtgggttcgggagcaaatctgaggttc...

Basic information

species Oryza sativa
transcript LOC_Os12g40830.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g40830.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G069758_T02 (Zea mays), 5'ss of exon 3
-GCGGCGGCGGAGGACGGCGATGGCGCGGCCGCCGGTGCTCTCCGTCGCGCTTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttcttcttccccccctcaatcccaatctgctcttcattcctcattccatggaagcgtatatatatcgagtgggttcgggagc---aaatctgaggttc---
 ||||||||| |   ||  |||||||||||||||| | || ||||||||||| || || ||||| || || ||||||||||||||||||||||||||||||||||   |  || |||   |    | | |   | |   |  || ||   | | ||    | |  |    ||||   | |||  ||||    | |||| |  |    
GGCGGCGGCGTACC-CGAAGATGGCGCGGCCGCCGATCCTATCCGTCGCGCTGCCGTCTGACACCGGCCGTGTGCTCAGCATCCAGTCCCACACCGTCCAGgttcagcccgctgccctgaccacctgcgaccatccgtctgtttgctgggttcctg----cttgcacgcctcga--tgattcaagagcccggactctgcgcctgcct

upper sequence: LOC_Os12g40830.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G398107_T01 (Zea mays), 5'ss of exon 1
-GCGGCGGCGGAGGACGGCGATGGCGCGGCCGCCGGTGCTCTCCGTCGCGCTTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttcttcttccccccctcaatcccaatctgctcttcattc-ctcattccatggaagcgtatatatatcgagtgggttcgggagc---aaatctgaggttc
 ||||||||| |   ||  |||||||||||||||| | || ||||||||||| || |||||||| || ||||| ||||||||||||||||||||||||  |    || | |   |||| || | ||||||  |  || ||   |  || | | | | |   |   |  ||       |    |   |||    | |||| |  | 
GGCGGCGGCGTACC-CGAAGATGGCGCGGCCGCCGATCCTGTCCGTCGCGCTGCCGTCCGACACCGGCCGCGTTCTCAGCATCCAGTCCCACACCGTCTGG-
















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|58661072|gb|CK049752.1|CK049752
EST:     TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAG                         TGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCGTGGGCTTT
genomic: TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttctt ... tttaatttagGGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
EST: gi|88448481|gb|CI693864.1|CI693864
EST:     TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAG                         GGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
genomic: TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttctt ... tttaatttagGGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
EST: gi|88301040|gb|CI592220.1|CI592220
EST:     TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAG                         GGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
genomic: TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttctt ... tttaatttagGGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
EST: gi|88443713|gb|CI591938.1|CI591938
EST:     TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAG                         GGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
genomic: TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttctt ... tttaatttagGGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
EST: gi|88580749|gb|CI697698.1|CI697698
EST:     TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAG                         GGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
genomic: TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttctt ... tttaatttagGGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
EST: gi|88424098|gb|CI689800.1|CI689800
EST:     TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAG                         GGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
genomic: TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttctt ... tttaatttagGGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
EST: gi|88335844|gb|CI645445.1|CI645445
EST:     TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAG                         GGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
genomic: TTCCCTCCGACACGGGACGCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttctt ... tttaatttagGGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
EST: gi|66924011|gb|CX110859.1|CX110859
EST:     GCGTGCTCAGCATCCAGTCCCACACCGTCCAG                         GGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT
genomic: GCGTGCTCAGCATCCAGTCCCACACCGTCCAGgttccttctt ... tttaatttagGGATACGTTGGCAACAAATCAGCAGTCTTTCCCCTGCAACTCCTGGGCTTT