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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGATCAAGGCGGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAGgtgaccacgacgatgctctccccctcgtccctccccctctttttcgatctcctctctactgtcttgcgggttcggttgaggtggatgcgattttagatct...

Basic information

species Oryza sativa
transcript LOC_Os01g22520.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g22520.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA17G04210.1 (Glycine max), 5'ss of exon 1
GGCGATCAAGGCGGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAGgtgaccacgacgatgctctccccctcgtccctccccctctttttcgatctcctctctactgtcttgcgggttcggttgaggtggatgcgattttagatct--------
 || ||||| || |||||||| || || || ||||| |||||||| ||| | ||||| |||||||| || |||||||||||||| |||||||| ||||||||          ||  |||    |    | ||   |   || |  |      ||   | |   || |  ||||| || |      ||   |||  | |          
CGCCATCAAAGCCGCGCAGCTCGGTCTGAAAACCACTTGCATCGAAAAGCGTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgt--------tcattttctttttcaaaccgcttttctgtttgtgtgtggcattcggaattcattttctagttcgtttaaatcttgtgttgtttctggttcttatcttt

upper sequence: LOC_Os01g22520.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA07G36040.1 (Glycine max), 5'ss of exon 1
GGCGATCAAGGCGGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAGgtgaccacgacgatgctctccccctcgtccctccccctctttttcgatctcctctctactgtcttgcgggttcggttg---aggtggatgcgattttagatct--
||| || || |||||||||||||| || || ||||| |||||||| ||  | ||||| |||||||| || |||||||||||||| |||||||| ||||||||       |   |  ||   ||    | |||   || ||||||   | ||  |    |||   | ||   |   ||    || | | |   || ||   |    
GGCCATTAAAGCGGCGCAGCTGGGTCTGAAAACCACTTGCATCGAAAAACGTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgt-----tcattttcttcaaaccgcttttccttttcccctttttttgtttctgcgtgtctgggattcgaaattcattttctagttcgtttaaatcttgtgttgtt

upper sequence: LOC_Os01g22520.1 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv05s0020g00380.t01 (Vitis vinifera), 5'ss of exon 1
GGCGATCAAGGCGGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAGgtgaccacgacgatgctctccccctcgtccctccccctctttttcgatctcctc---tctactgtcttgcgggttcggttgaggtggatgcgattttagatct
 || || || || || ||||| || |||||||||||||| ||||||||| | ||||| |||||||| || || ||||||||||| || || || |||||||| |  |    | | |  |     || |   |     | ||| |   |||  |    |||   |  ||    ||| | ||||  |    |||| |||   |  
CGCCATTAAAGCTGCCCAGCTTGGTCTCAAGACCACCTGTATCGAGAAGCGCGGCACTCTCGGCGGTACCTGTCTCAACGTCGGTTGTATTCCTTCCAAGgtaat-atagggtttccttttttttcttttttggaaatttttatttctcttgttggatctgtggattttgttgtttgtttgatttctg-gcgactttgtgtt-

upper sequence: LOC_Os01g22520.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EDP01871 (Chlamydomonas reinhardtii), 5'ss of exon 2
GGCGATCAAGGCGGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAGgtgaccacgacgatg-ctctccccctcgtccctccccctctttttcgatctcctctctactgtc-ttgcgggttcggttgaggtggatgcg-attttagatct
||| |||||||| ||||||||||| ||||    | ||||| | |||  | | ||| | || ||||| || ||||||||||| |||||||||||||||||||||    || ||  | ||   |     |    |            |||        | |  |     ||      || || | |||   |   |  |||    
GGCTATCAAGGCCGCGCAGCTGGGTCTCAGCGTCGCCTGCGTGGAGGGGCGTGGCGCGCTGGGCGGCACCTGCCTCAACGTGGGCTGCATCCCCTCCAAGgtg-tggcgccgggggctgagcattaaggtggtgggaggtggggccgaggggaggccaatggcagccgcaacgggggctgggatggggacacgtagtaggg--

upper sequence: LOC_Os01g22520.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ16908 (Selaginella moellendorffii), 5'ss of exon 1
GGCGATCAAGGCGGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAGgtgaccacgacgatgctctccccctcgtccctccccctctttttcgatctcctctctactgtcttgcgggttcggttgaggtggatgcgattttagatct
||| ||||||||||||||||||||  ||||||| || |||||||||||||| ||| |||| ||||| || ||||||||||| || ||||| || ||||| || |       | ||||| | |  |  | | |  |  |   ||  | ||  | |     ||  |        | |                         
GGCAATCAAGGCGGCGCAGCTGGGATTCAAGACGACGTGCATCGAGAAGAGAGGCTCCCTGGGCGGCACTTGCCTCAACGTTGGATGCATTCCTTCCAAAgtaa-----gtgctgctcactcgattcttcttggcatttgatt--gctcaacccatggatggatgaacaccacag-------------------------

upper sequence: LOC_Os01g22520.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ05528 (Selaginella moellendorffii), 5'ss of exon 1
GGCGATCAAGGCGGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAGgtgaccacgacgatgctctccccctcgtccctccccctctttttcgatctcctctctactgtcttg-cgggttcggttgaggtggatgcgattttagatct
||| ||||||||||||||||||||  ||||||| || |||||||||||||| ||| |||| ||||| || ||||||||||| || ||||| || ||||| || |       | ||||| | |  |  ||    |   |||| |  |||  |    |   ||  | |  |    |    |                      
GGCAATCAAGGCGGCGCAGCTGGGATTCAAGACGACGTGCATCGAGAAGAGAGGCTCCCTGGGCGGCACTTGCCTCAACGTTGGATGCATTCCTTCCAAAgtaa-----gtgctgctcactcgat--tcttggcatttcttgtgtgattgctcaacccatggatggatgaacaccacag----------------------

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|33796354|gb|CF324044.1|CF324044
EST:     GGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAG                         GCTCTGTTGCACTCATCTCATATGTACCATGAAGCAAAAAGTTCCTTTGCA
genomic: GGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAGgtgaccacga ... taatctccagGCTCTGTTGCACTCATCTCATATGTACCATGAAGCAAAAAGTTCCTTTGCA
EST: gi|58609588|gb|CK037621.1|CK037621
EST:     GGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAG                         GCTCTGTTGCACTCATCTCATATGTACCGTGAAGCAAAAAGTTCCTTTGCA
genomic: GGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAGgtgaccacga ... taatctccagGCTCTGTTGCACTCATCTCATATGTACCATGAAGCAAAAAGTTCCTTTGCA