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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttgattggatccgtgtgttgttgcttcctgcag

Basic information

species Oryza sativa
transcript LOC_Os06g03760.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM5G871262_T02 (Zea mays), 5'ss of exon 1
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaag-tagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttgattggatccgtgtgttgttgcttcctgcag
|||||| ||| |||||||||| ||| |||||||  ||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||  |      | |     |||||   | |||   | | ||||    | || |||| | |  |    | |  |    |  |                             
CCATGAGGACGCTCTGGCTCGTCGTTTACATCGTTGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCAATGTTCTACTACGAGGGCGACCAGGACAAgtaacctcacccccctcgctgtttccctaccttctcttcttccatc---cgtccgctgatgatttggacccgccttccctgcag----------------------------

upper sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 1
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttgattggatccgtgtgttgttgcttcctgcag
||||||||  |||||||||||| |||||||||  ||||||||||||||||||| |||||||||||||||||||||||| |||||||||||||||||||||||| |  || |   | ||   ||  |   ||   |||    | |   |  | |  ||      |   |   ||||||  ||| |      |||||  |             
CCATGAAGGACCTCTGGCTCGCAGTCTACATCCTCGACGCCGTCCTCGTCTTCTTCGTCATCCCCTTCGCCATGTTCTTCTACGAGGGCGACCAGGACAAgtacgaggtttttgt-tattgtttgaaatttgaatct---tcgtcaagtgtttcgtg---ggtttgaatgaaatgtttgtgact----ttgtgtgcag-------------

upper sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA03G07890.1 (Glycine max), 5'ss of exon 1
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagta---gt-----------atacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttga--------ttggatccg----tgtgttgttgcttcctgcag------
||||||||  ||||||||||||  | ||||||  ||||||||||||||||||| ||||||||||||||||||||||||||||||| ||||||||||||||||||||    ||           ||   || | | ||  | | ||     |||   ||   | |  || | ||     || |  | ||| |    |         || |   |    ||||||||   ||   | |       
CCATGAAGGACCTCTGGCTCGCAATTTACATCCTCGACGCCGTCCTCGTCTTCTTCGTCATCCCCTTCGCCATGTTCTACTACGAAGGCGACCAGGACAAgtaagtgtatgtggtgctttttaatttttaaaaaatttaagttttgtgattattagatactgaaattgatactttgtgctaatagcatggtaacaaaaaaaatactgaaattgaaaatgtgttgtgattttgggaatgtgcag

upper sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 1
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttgattggatccgtgtgttgttgcttcctgcag
||||||||  ||||||||||||||||||||||  |||||| |||||||||||  |||| ||||||||||||||||||| |||||||||||||||||||||||| |   | |   | |    || |  |  || ||  |    ||  | ||| ||             |   ||||||||  ||||| |   ||||   ||| |   |||||
CCATGAAGGACCTCTGGCTCGCCGTCTACATCCTCGACGCTGTCCTCGTCTTTTTCGTTATCCCCTTCGCCATGTTCTTCTACGAGGGCGACCAGGACAAgtacgagttttttttcttttctttcgttggttgcttcaaaatatcac-catttga------------atgaaatgttgt--attggtt---tgtggctttgttgtgtgcag

upper sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 1
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttgattggatccgtgtgttgttgcttcctgcag
||||||||  ||||||||||||  | ||||||  ||||||||||||||||||| |||| |||||||| ||||||||||||||||| |||||||||||||||||||| ||||          ||  | | |    | | |    ||  |  | |  |  |      |||   | ||   ||||  | | ||    |||| | |         
CCATGAAGGACCTCTGGCTCGCAATTTACATCCTCGACGCCGTCCTCGTCTTCTTCGTTATCCCCTTTGCCATGTTCTACTACGAAGGCGACCAGGACAAgtaagt-gtatgtcgtggtgcttttaatttgatgtttttttttttttgtttttaat-ttttgtaatcatatactgaaattgaacgaa-ccagacgttggtccg--------

upper sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttgattggatccgtgtgttgttgcttcctgcag
||||||||   || ||||| ||  | || ||||  |||||  | ||||| ||| | |||||||||||||| ||||| | ||| || ||||||||||||||||  ||||  |    ||  | ||  | | |   ||||||    |||    | |   | ||| |    |||||      ||  | || |   | | ||     ||    |||
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttg---atgaaattttagtat---ctctat---gttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag

upper sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 1
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttgattggatccgtgtgttgttgcttcctgcag
| ||||||   || ||||| ||||| ||||| |  ||||| || || |||||| || ||||||||||||| ||||| | ||| || ||||||||||||||||  ||              | |||||  |||  | | |    ||    |  |  |  ||     | |   || |||||||||    |  |  ||| |||  || ||||||
CTATGAAGGATCTTTGGCTTGCCGTTTACATTGTTGACGCTGTGCTTGTCTTCTTCATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAAgtttgtt-------------tctccacgatttttttttttttttttttgagttattattagttggtaatgtaaagttgttgatgttgtgggcttgt-gttttttactgcag

upper sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 5'ss of exon 1
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgtt-gattggatccgtgtgttgttgcttcctgcag
| |||| |   || ||||||||| | ||||| |  || || || ||||| ||| | || || ||||||||||||||||||||||| ||||||||||||||||  ||| | ||    | |  |   | | || |    ||  | |    |  ||  || || | | | | ||  || ||   || || |      |    |            
CGATGAGGGATCTGTGGCTCGCCATTTACATTGTTGATGCTGTACTCGTATTCTTTGTTATTCCCTTCGCCATGTTCTACTACGAAGGCGACCAGGACAAgtcggtactttagggtttc--tattaatattgctgagatttcgtatttctccttttgttagagt-tgattggttgctgcgagactgaaggaaaataaaataaa---------

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|58671154|gb|CK059840.1|CK059840
EST:     TTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAA                         GTCAGTGGGGAAGAGGCTCACCTCCGCTCTCCTGTGGGTCGCCGTCTCCGC
genomic: TTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagta ... cttcctgcagGTCAGTGGGGAAGAGGCTCACCTCCGCTCTCCTGTGGGTCGCCGTCTCCGC
EST: gi|58667548|gb|CK056234.1|CK056234
EST:     TTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAA                         GTCAGTGGGGAAGAGGCTCACCTCCGCTCTCCTGTGGGTCGCCGTCTCCGC
genomic: TTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagta ... cttcctgcagGTCAGTGGGGAAGAGGCTCACCTCCGCTCTCCTGTGGGTCGCCGTCTCCGC