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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCACTTTATACCAAAGCTGTTAAATTCTATGAGGAGATCTCAAAGCAGCTTGTACATCAAGGCCATGTGCTTGATTTTTTTGCATGTGCACTTGACCAGgtttgctgcttttctcactgtttatcatttaataagctatccacccatttcatcgcaaaggatcacatatcaacttattgaatgaagtattattttattt...

Basic information

species Oryza sativa
transcript LOC_Os08g36994.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g36994.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA03G22740.1 (Glycine max), 5'ss of exon 3
TCCACTTTATACCAAAGCTGTTAAATTCTATGAGGAGATCTCAAAGCAGCTTGTACATCAAGGCCATGTGCTTGATTTTTTTGCATGTGCACTTGACCAGgtttgctgcttttctcactgtttatcatttaataagctatccacccatttcatcgcaaaggatc-acatatcaacttattgaatgaagtattattttattt-------
 |||| |||    |||  ||| ||||||||||| |   | || ||||||||||| |||||||| ||||| || ||| ||||||| ||||| ||||| ||||     |  | || ||||| |||||||  | |     | ||       | ||  |||     ||    ||  |  | |     |  |    | ||||           
GCCACATTACCATAAATGTGTGAAATTCTATGATGGACTTTCGAAGCAGCTTGTGCATCAAGGTCATGTACTAGATCTTTTTGCTTGTGCTCTTGATCAGg-----taatgttttcact-tttatcaactgacc--ttttctggttggtacacagcattttgtctgtttaaaagttgaccatgtttatctctgttttccacctaaaga

upper sequence: LOC_Os08g36994.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA16G09230.1 (Glycine max), 5'ss of exon 3
TCCACTTTATACCAAAGCTGTTAAATTCTATGAGGAGATCTCAAAGCAGCTTGTACATCAAGGCCATGTGCTTGATTTTTTTGCATGTGCACTTGACCAGgtttgctgcttttctcactgtttatcatttaataagctatccacccatttcatcgcaaaggatcacatatcaacttattgaatgaagtattattttattt------------
 |||| |||    ||   ||| ||||||||||| |   | || ||||||||||| |||||||||||||| || ||| ||||||| ||||| ||||| ||||     |  | |||||||| |||||||  | |    || ||       | ||  ||||    |  | | |  |    |||| | | || || | |  |||            
GCCACATTACCATAACTGTGTGAAATTCTATGATGGACTTTCGAAGCAGCTTGTTCATCAAGGCCATGTACTAGATCTTTTTGCTTGTGCTCTTGATCAGg-----taatgttctcact-tttatcaactgacc--ctttctggttggtacacagcaat---ttgcctgtttataagttgactaatgt-ttgtctgttttccacctaaagaa

upper sequence: LOC_Os08g36994.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv15s0045g00540.t01 (Vitis vinifera), 5'ss of exon 3
TCCACTTTATACCAAAGCTGTTAAATTCTATGAGGAGATCTCAAAGCAGCTTGTACATCAAGGCCATGTGCTTGATTTTTTTGCATGTGCACTTGACCAGgtttgctgcttttctcactgtttatc--atttaataagctatccaccc-atttcatcgcaaaggatcacatatcaacttattgaatgaagtattattttattt-
||| | ||||   || ||||| || || |||||||   |  |||||||||||||||||||||| ||||| |||||| | ||||| ||||| ||||||||||  |  |  ||  ||  ||  |||||     || |||  |   || ||  | | |      |  ||   ||    |  |||| | |  | |     |||   | 
TCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGACTTGCAAAGCAGCTTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAGg--taatatttagctttcttgttatccggactattaatttccacatcctgtgtaaatattgattatgggatggtga--tatttactagatttcagattttcctc

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|29622673|gb|CB627684.1|CB627684
EST:     TTGTACATCAAGGCCATGTGCTTGATTTATTTGCATGTGCACTTGACCAG                         GTTGGTGTTGCTGAGATGAAGGTTGCAGTGGAGAGGACTGGGGGAATAGTT
genomic: TTGTACATCAAGGCCATGTGCTTGATTTTTTTGCATGTGCACTTGACCAGgtttgctgct ... cttttctcagGTTGGTGTTGCTGAGATGAAGGTTGCAGTGGAGAGGACTGGGGGAATAGTT
EST: gi|396941631|gb|HO188288.1|HO188288
EST:     TTGTACATCAAGGCCATGTGCTTGATTTATTTGCATGTGCACTTGACCAG                         GTTGGTGTTGCTGAGATGAAGGTTGCAGTGGAGAGGACTGGGGGAATAGTT
genomic: TTGTACATCAAGGCCATGTGCTTGATTTTTTTGCATGTGCACTTGACCAGgtttgctgct ... cttttctcagGTTGGTGTTGCTGAGATGAAGGTTGCAGTGGAGAGGACTGGGGGAATAGTT