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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCACCATCCGAACAGCGGTGAGATCTGCCGTAGCAAAGGAGAACCGCATGGGTGCATCATTGCTCCGCCTCCACTTCCATGACTGCTTTGTCAATGAAAgtgtccagaacctgtacagatactcaagtttttctcacttctaagtatcaagtactaaccttcagtattctgacaatgcag

Basic information

species Oryza sativa
transcript LOC_Os11g02100.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g02100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA02G40000.1 (Glycine max), 5'ss of exon 1
----TCCACCATCCGAACAGCGGTGAGATCTGCCGTAGCAAAGGAGAACCGCATGGGTGCATCATTGCTCCGCCTCCACTTCCATGACTGCTTTGTCAATGAAAgtgtccagaacctgtacagatactcaagtttttctcacttctaagta---tcaagtactaacct--tcagtattctgacaatgcag-----------
    || | ||||  ||| |||||||    ||| || || || ||| |||||||||| || || |||||||| || || |||||||||||||||||||||| | || | |        ||      ||  |   |||||||||   || ||   ||| | |   |  |  | |   |||  |||||               
TCTCTCTATCATCAAAACGGCGGTGATTGGTGCGGTTGCGAAAGAGCACCGCATGGGAGCCTCCTTGCTCCGTCTTCATTTCCATGACTGCTTTGTCAATgcacgttttcttttaacatatcctagcttca-cctttctcactgtcaattaatctcatgcatatatgtgattaaatttcgaacaataatatatattggcat

upper sequence: LOC_Os11g02100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA03G04880.1 (Glycine max), 5'ss of exon 1
----TCCACCATCCGAACAGCGGTGAGATCTGCCGTAGCAAAGGAGAACCGCATGGGTGCATCATTGCTCCGCCTCCACTTCCATGACTGCTTTGTCAATGAAAgt-gtccagaacctgtacagatactcaagtttttct-cacttctaagtatcaagtactaaccttcagtattctgacaatgcag-------------
    |  |||||    |     || |   |||| ||    || |||   |||||||||||||| |||||||| || || |||||||| ||||||||| | | ||||  |  |  |    ||  | ||   |  | | | |  |  | ||  |||  |    ||    |   |||    | | |                 
CCTCTTTACCATTAATAACCTAGTAACCGCTGCTGTGCGGAAAGAGTCTCGCATGGGTGCATCCTTGCTCCGTCTTCATTTCCATGATTGCTTTGTCCAAgtaagtcattaattaatcttattgttatatatatatatatatatatatatatatatatatatatatatatatatatatatatttttttttttttttgaat

upper sequence: LOC_Os11g02100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv18s0001g06840.t01 (Vitis vinifera), 5'ss of exon 1
----TCCACCATCCGAACAGCGGTGAGATCTGCCGTAGCAAAGGAGAACCGCATGGGTGCATCATTGCTCCGCCTCCACTTCCATGACTGCTTTGTCAATGAAAgtg----tccagaacctgt-------acagatactcaagtttttctcacttct--aagtatcaagtactaacc-ttcagtattctgacaatgcag-
     | ||||| ||||| || || |     || || || || ||||| |||||||| || ||||||||||||||||| |||||||| ||||| ||    | ||||     |||| |  |          |  |||  ||   ||||    |||| |  || | |    |  | ||   | | |       |||   || 
TCTCCCTACCATTCGAACTGCAGTAAACAAAGCAGTGGCCAAAGAGAAACGCATGGGGGCCTCATTGCTCCGCCTCCATTTCCATGATTGCTTCGTATTGgcaagtcgttctccacattcctcctttttaatggatcttctgtttttcactacttttttaacttttttctggttactactgactgcctctgcaacttagg

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|88745172|gb|CI768532.1|CI768532
EST:     GGGTGCATCATTGCTCCGCCTCCACTTCCATGACTGCTTTGTCAATG---                         G-TTGTGATGGATCGGTGCTGCTAGATGACACCCCAACCTTCACTGGAGAG
genomic: GGGTGCATCATTGCTCCGCCTCCACTTCCATGACTGCTTTGTCAATGAAAgtgtccagaa ... gacaatgcagGGTTGTGATGGATCGGTGCTGCTAGATGACACCCCAACCTTCACTGGAGAG