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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATCATCAGCACGGACGGTGGCAGGCACGCATCGGCCGAGTCTCCGGCAACAAGGACCTCTACCTCGGCACTTTCAgtacgaatcattatatcgatcctaattaaattagccttaattattttttctagctctgaataataattctgcaaacacgtacatacatatagtagacgac...

Basic information

species Oryza sativa
transcript LOC_Os07g03250.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g03250.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G008234_T01 (Zea mays), 5'ss of exon 5
GCATCATCAGCACGGACGGTGGCAGGCACGCATCGGCCGAGTCTCCGGCAACAAGGACCTCTACCTCGGCACTTTCAgtacgaatcattatatcgatcctaattaaattagccttaattattttttctagctctgaataataattctgcaaacacg--tacatacatatagtagacgac
||| || |||||||| ||||||||||| ||||||||||| |||||||||||||||||||||||||||||||| |||||||||     ||  || |    |       ||  ||||  ||  ||        | |           ||||  |   |  |    |   ||    || || 
GCACCACCAGCACGGGCGGTGGCAGGCGCGCATCGGCCGCGTCTCCGGCAACAAGGACCTCTACCTCGGCACCTTCAgtacgtgcgcttgcattg-cattgccctccttctccttccttccttgagtatcatgtcgtcgtcgtccctgcgtatgggattggcgatgcatgcatgatga-

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S66_282V6.1 (Physcomitrella patens), 5'ss of exon 6
-----------------------GCATCATCAGCACGGACGGTGGCAGGCACGCATCGGCCGAGTCTCCGGCAACAAGGACCTCTACCTCGGCACTTTCAgtacgaatcattatatc-----gatcctaattaaattagc---cttaattattttttctagctctgaataataatt--------ctgcaaacacgtacatac-atatagtagacgac------------------------
                       ||| |||||||||||  ||||||||||||| || || || ||  |||| ||||||||||| ||||| ||||||| ||||  |   || | |  |     | |    |    |  ||     ||   | | || |   | | || |     ||         | ||| ||  |   ||   ||  |   | || |                        
TCGATGTACCGAGGGGTGACGAGGCACCATCAGCACGGGAGGTGGCAGGCACGGATTGGGCGCGTGGCCGGGAACAAGGACCTGTACCTGGGCACTTACAgtgagtggcagtttgacttgggggtttgcagaggaggagggggtttgtatgtgttgttgggatgtggagggagatgtgcagttgcagcagacgtggggatctgatccaacggtcggcgtggcgtgggtgtgtgtgagtcag

upper sequence: LOC_Os07g03250.1 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S131_139V6.1 (Physcomitrella patens), 5'ss of exon 5
-----------------------GCATCATCAGCACGGACGGTGGCAGGCACGCATCGGCCGAGTCTCCGGCAACAAGGACCTCTACCTCGGCACTTTCAgtacgaatcattatatcgatcctaattaaattagccttaattattttttct---agctctgaataataattctgcaaacacgt---acatacatatagtagacgac---------------------------------------------------------------------------------------------
                        || |||||||| || || ||||| |||||||| || |||||| | || ||||||||||| ||||| ||||||| ||||  |   |  | |  |     |   ||||      |  ||||   |  ||   |   |||     |  | |||  |  || |   | ||  ||   | ||||  |                                                                                             
TCCATGTATCGAGGGGTGACGAGACACCATCAGCATGGGCGATGGCAAGCACGCATTGGGCGAGTCGCGGGAAACAAGGACCTTTACCTGGGCACTTACAgtgagtgccggtttcacatgaatttgtaaacattagtggattaccctcgctgcaaatcctggtcgtttctcctgataggacttctgatatcgattccggagacatcagcatattctgggtctcgttgcaatgttgaaaggatttcgcagggtgcccatgttacctaatggttaaaatgaactggctttgtatgactcag

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|58686395|gb|CK075082.1|CK075082
EST:     ACGCATCGGCCGAGTCTCCGGCAACAAGGACCTCTACCTCGGCACTTTCA                         GCACGCAGTGAGTGAGGCGGCGGATGCGTACGACGTGGCGGCGATCAAGTT
genomic: ACGCATCGGCCGAGTCTCCGGCAACAAGGACCTCTACCTCGGCACTTTCAgtacgaatca ... atggatgcagGCACGCAG-GAG-GAGGCGGCGGAGGCGTACGACGTGGCGGCGATCAAGTT