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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTTGCTGGATATTTTGATGCCGTATTGTATAAAGATGTTCATCTTGGAATTGAACCAAACACGGCTACACCAAACATGTTTAGCTGgtacactaaatggcaaaacctgatttttatgtgctggcaataactgttcttgaatagtgccttcaatattatcttttatgtatctcatcag

Basic information

species Oryza sativa
transcript LOC_Os02g04660.2
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g04660.1 (Oryza sativa), 5'ss of exon 20
lower sequence: GRMZM2G011456_T03 (Zea mays), 5'ss of exon 20
GATTTGCTGGATATTTTGATGCCGTATTGTATAAAGATGTTCATCTTGGAATTGAACCAAACACGGCTACACCAAACATGTTTAGCTGgtacactaaatggcaaaacctgatttttatgtgctggcaataactgttcttgaatagtgccttcaat-attatcttttatgtatctcatcag----------
|||||||||| ||||||||  | ||  | ||||| ||||||||||||||||| || |||||||| ||||||||||||||||| |||||||||           | |  |  |||      |||| |||||     |||  |||  |||| ||| | | || || |||| |   | |              
GATTTGCTGGCTATTTTGACTCTGTTCTTTATAAGGATGTTCATCTTGGAATCGAGCCAAACACCGCTACACCAAACATGTTCAGCTGgtac---------tgatattttgtttacgaaagctgacaatacaatctctcaaatcttgccatcagtcaatagctgttatcttcatgacggaaaactgtcag

upper sequence: LOC_Os02g04660.1 (Oryza sativa), 5'ss of exon 20
lower sequence: GRMZM2G169927_T03 (Zea mays), 5'ss of exon 20
GATTTGCTGGATATTTTGATGCCGTATTGTATAAAGATGTTCATCTTGGAATTGAACCAAACACGGCTACACCAAACATGTTTAGCTGgtacactaaatggcaaaacctgatttttatgt--gctggcaataactgttcttgaatagtgccttcaatattatcttttatgtatctcatcag------
|||||||||| ||||||||  | ||| | ||||||||||||||||||||||| || |||||||| ||||||||||||||||||||||||||  ||  |       ||||||| ||||     ||||| ||||     |||  ||    | | ||||||      | |   |  |  | ||       
GATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAATCGAGCCAAACACAGCTACACCAAACATGTTTAGCTGgtaacctgca-------acctgatctttacaaaagctggaaatagaatctctcaaacctcgacatcaataactgtatcttcatgccgtaacactgtcag

upper sequence: LOC_Os02g04660.1 (Oryza sativa), 5'ss of exon 20
lower sequence: AT4G31120.1 (Arabidopsis thaliana), 5'ss of exon 21
GATTTGCTGGATATTTTGATGCCGTATTGTATAAAGATGTTCATCTTGGAATTGAACCAAACACGGCTACACCAAACATGTTTAGCTGgtac--actaaatggcaaaacctgatttttat--gtgctggcaataactgttcttgaatagtgccttcaatattatcttttatgtatctcatcag
|||| ||||| ||||||||| ||||  | |||||||||||||||||||| || || || |  || || |||||||||||||| ||||||||     | |||| | | |  || |||  |   | |||  |    |  |  | |   || | |   | | |  |  |  | |   | |   |||
GATTCGCTGGCTATTTTGATTCCGTCCTTTATAAAGATGTTCATCTTGGGATCGAGCCTACAACAGCAACACCAAACATGTTCAGCTGgtaatggattaatgtctataaatgttttaaaacagagctttcttctatcgaacctct-tacttcaaccgagagaaaatcgtgttccttttggcag

upper sequence: LOC_Os02g04660.1 (Oryza sativa), 5'ss of exon 20
lower sequence: Vv04s0008g03120.t01 (Vitis vinifera), 5'ss of exon 21
GATTTGCTGGATATTTTGATGCCGTATTGTATAAAGATGTTCATCTTGGAATTGAACCAAACACGGCTACACCAAACATGTTTAGCTGgtacactaaatggcaaaacctgatttttatgtgctggcaataact-----gttcttgaatagtgc-----cttcaatattatcttttatgtatctcatcag
|||||||||| |||||||||||     | || |||||||| |||||||| |||||||||   ||||| || ||||||||||| ||||||||    |          | |  ||||||||  || |||| ||       || |   |  ||| |     ||   ||||  |  |||  || | ||||   
GATTTGCTGGCTATTTTGATGCAACTCTTTACAAAGATGTACATCTTGGTATTGAACCATCGACGGCAACTCCAAACATGTTCAGCTGgtatgacattcaatcct-ctttgtttttatgccctagcaacaaagttgaggtccacaatgagttcacacgctcagatatgtttgtttgggtgtttcatgtt

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|58661310|gb|CK049990.1|CK049990
EST:     GTTCAGGTTGGAATTGAACCAAACACGGCTACACCAAACATGTTTAGCTG                         GTTCCCGATCTTCTTCCCATTGAGAAAGCCCATCTACGTACCGTCGAAGAC
genomic: GTTCATCTTGGAATTGAACCAAACACGGCTACACCAAACATGTTTAGCTGgtacactaaa ... atctcatcagGTTCCCGATCTTCTTCCCATTGAGAAAGCCCATCTACGTACCGTCGAAGAC