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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGCGACCTGATGTTTTCAGgtgaccagatggaaattttatgataatcaataggcatcatttacattgtcgctagtgcttttatggataatattgaatgctctgtggcatttccttcgta...

Basic information

species Oryza sativa
transcript LOC_Os01g54100.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g54100.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT2G25760.2 (Arabidopsis thaliana), 5'ss of exon 8
CTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGCGACCTGATGTTTTCAGgtgaccagatggaaattttatgataatcaataggcatcatttacattgtcgctagtgcttttatggataatattgaatgctctgtggcatttccttcgta-
|  |||| ||| ||||| || ||||||| || || ||||| ||||||||||| ||||||||||| |||| |   |||  |  |      | |  |  |  |  | |||   ||    |        |||| || || |  | || |   || |   |||| ||   | 
CATCCAAATGGCGAGATACTGCAACTGGACTACATGTTGAATATGACCAGCGTCCTGATGTTTTTAGgtaagttgattcagctaggcataaagcctgtgagattgattcttatcagggacttcaacttta-gggtacttattaacgtgttg-gctttttcattttcag

upper sequence: LOC_Os01g54100.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 5'ss of exon 8
CTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGCGACCTGATGTTTTCAGgtgaccagatggaaattttatgataatcaataggcatcatttacattgtcgctagtgc----ttttatggataatattgaatgctctgtggcatttcct-tcgta------
| |||||||||||||||  |||||||||||| || ||||| ||||| || || || ||||||||||||| |    ||   || || |   || ||||  | | ||| |||  ||     || ||     |||| |  ||  | |||  | ||   ||| |     | |  |       
CCACCAAGTGGAGAGATAGTTCAACTGGCCTTCATGTTGAATATGATCAACGGCCAGATGTTTTCAGgtaa---aatcagaacttga--gtattcaactgccttcagttagcttcattttaatgtgggattttgtatatccttttgtttacttgctggtacaatatgttatgctacag
















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|58680661|gb|CK069348.1|CK069348
EST:     GCTTCAACTGGCCTCCACGTTGACTATGACCAGCGACCTGATGTTTTCAG                         GGGGACAGTTCGCTATGCTAGTGTTCATGCACATCTAGGGAGAATCGGTAG
genomic: GCTTCAACTGGCCTCCACGTTGACTATGACCAGCGACCTGATGTTTTCAGgtgaccagat ... gctatttcagGGGGACAGTTCGCTATGCTAGTGTTCATGCACATCTAGGGAGAATCGGTAG