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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTTATTGGGGAATCTGCTGGGCTTAAGGGAGATGGCTCTGAGATTATCCTTGACTTGTTCTGTGGAACCGGAACCATTGGTCTTACCCTTGCTAGAAGgtaaattttctcactattatcatgctgttggagagcagttgctactatgtgaggccattttttttcatttgtttcaagtcttagcacaaaactttgagcattcgtcattcggttacccatttattgaaaagcatgattagtagatgttcttctgatttgaccag

Basic information

species Oryza sativa
transcript LOC_Os01g09750.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g09750.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G115198_T01 (Zea mays), 5'ss of exon 6
AGCTTATTGGGGAATCTGCTGGGCTTAAGGGAGATGGCTCTGAGATTATCCTTGACTTGTTCTGTGGAACCGGAACCATTGGTCTTACCCTTGCTAGAAGgtaaattttctcactattatcatgctgttggagagcagttgctacta--tgtgaggccattttttttcatttgtttcaagtcttagcacaaaactttgagcattcgtcattcggttacccatttattgaaaagcatgattagtagatgttcttctgatttgaccag
|||||||||  || |||||||||||||| |||||||||||||| ||| | |||||  |||| |||||||| |||||||||||| | ||| ||||  |||||||  |||| |     |   |||  |    |||| ||| |  | ||   ||||||   ||  ||  |   ||| |        || || ||| |      ||||    |||    |    ||||  ||  || |||  |||||| |   | ||||| || |  |||
AGCTTATTGAAGATTCTGCTGGGCTTAAAGGAGATGGCTCTGAAATTGTTCTTGATCTGTTTTGTGGAACTGGAACCATTGGTTTGACCTTTGCCCGAAGgtagttttttttcaggtgtacatattccgtgaga-cagatatttctggttgtgagagtataattgctttcttggt--------taacataaacc------cattttctattacaat----attttatggcaaccatttttagtaaacacttttctgcttggctcag

upper sequence: LOC_Os01g09750.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT3G21300.1 (Arabidopsis thaliana), 5'ss of exon 7
AGCTTATTGGGGAATCTGCTGGGCTTAAGGGAGATGGCTCTGAGATTATCCTTGACTTGTTCTGTGGAACCGGAACCATTGGTCTTACCCTTGCTAGAAGgtaaattttctcactattatcatgctgttggagagcagttgctactatgtgaggccattttttttcatttgtttcaagtcttagcacaaaactttgagcattcgtcattcggttacccatttattgaaaagcatgattagtagatgttcttctgatttgaccag
||||||||| |||||||||||| ||||| ||||||||||| ||  |  | || ||  | ||||||||||| || ||||| || ||||| ||||| ||||||||||     | |   | |   | ||||   |||  |      |   ||      |   || ||   | || |||   ||     |                                                                              
AGCTTATTGAGGAATCTGCTGGACTTAAAGGAGATGGCTCAGAAGTCGTGCTCGATCTTTTCTGTGGAACTGGTACCATAGGCCTTACACTTGCCAGAAGgtaaacaacatgagcgtaaa-gtactgtcaaagattaaaaataaaattgcagttgctgattgttcagtctgattcttctccctctag-----------------------------------------------------------------------------

upper sequence: LOC_Os01g09750.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv09s0002g02670.t01 (Vitis vinifera), 5'ss of exon 7
AGCTTATTGGGGAATCTGCTGGGCTTAAGGGAGATGGCTCTGAGATTATCCTTGACTTGTTCTGTGGAACCGGAACCATTGGTCTTACCCTTGCTAGAAGgtaaat--tttctcactatt--atcatgctgttggagagcagttgctactatgtgaggccattttttttcatttgtttcaagtcttagcacaaaactttgagcattcgtcattcggttacccatttattgaaaagcatgattagtagatgttcttctgatttgaccag
| ||||| |  || | |||||| ||||  || || |||||||| ||| | |||||| |||| |||||||| |||||||||||||| || ||| | ||||||| |||  ||| | | | ||   |   | |  |    | || |    ||| ||  | |||  ||  ||||| || | |||                                                                                        
AACTTATAGAAGATTGTGCTGGTCTTAGAGGTGACGGCTCTGAAATTGTTCTTGACCTGTTTTGTGGAACTGGAACCATTGGTCTAACACTTTCCAGAAGgtgaatgttttgtaattgttcagtttagttaatttttatcaatc-tgactttg-aatgcctcttgctttcactt-tatcag---------------------------------------------------------------------------------------

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|27548300|gb|CA766414.2|CA766414
EST:     CTTGACTTGTTCTGTGGAACCGGAACCATTGGTCTTACCCTTGCTAGAAG                         GGCAAAGCATGTCTATGGATATGAAGTAGTTCCTGAAGCCATTGCAGATGC
genomic: CTTGACTTGTTCTGTGGAACCGGAACCATTGGTCTTACCCTTGCTAGAAGgtaaattttc ... atttgaccagGGCAAAGCATGTCTATGGATATGAAGTAGTTCCTGAAGCCATTGCAGATGC