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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