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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCGTGAGTTGGCTGAAAAGGAACCTGAAAATGGTGTTTTCAGAATGCTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAACgtaatttattaaacctatgtgttctgccatgtttattatattttttttctataatccatattatgtcattgagttcaatccatacccacaatatgccact...

Basic information

species Oryza sativa
transcript LOC_Os03g39640.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g39640.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA02G46780.1 (Glycine max), 5'ss of exon 2
GTTCGTGAGTTGGCTGAAAAGGAACCTGAAAATGGTGTTTTCAGAATGCTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAACgtaattta-ttaaacctatgtgttctgccatgtttattatattttttttctataatccatattatgtcattgagttcaatccatacccacaatatgccact
|||||||||||||||||||||||  ||||||| ||||| |||||| | |||||||||||||||||||| ||||| || || ||||| |||||||||||||| | |  ||  |   || |  ||    |    ||| || ||||   | || |||   | | |||  | | | ||   |  || |               
GTTCGTGAGTTGGCTGAAAAGGAGTCTGAAAACGGTGTCTTCAGACTACTCCGAAGTGATGTTACTCGGTTCCTTACCACAATACTTATTGGCACAACgtattctccttgcattgatcttatcattgaaaaatatcattttttcagtatagaatgtttctcatgctagt-attttgttgtatgcag-------------

upper sequence: LOC_Os03g39640.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA14G01920.1 (Glycine max), 5'ss of exon 2
GTTCGTGAGTTGGCTGAAAAGGAACCTGAAAATGGTGTTTTCAGAATGCTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAACgtaattta-ttaaacctatgtgttctgccatgtttattatattttttttctataatccatattatgtcattgagttcaatccatacccacaatatgccact
|||||||||||||| |||||||| ||||||||||| || |||||| | |||||||||||||||||||| ||||| ||||| ||||| |||||||||||||| | |  ||  |   || |  |     |   || |  | ||||||   | ||     | |    |  | | |||   |   ||  ||            
GTTCGTGAGTTGGCCGAAAAGGAGCCTGAAAATGGCGTCTTCAGACTACTCCGAAGTGATGTTACTCGGTTCCTTACAACAATACTTATTGGCACAACgtattctccttgcattgatcttattattgaaaattttccttttttttcggtgtagaatgtttctcatgctagtgttttgtt-gtatgcag-----------

upper sequence: LOC_Os03g39640.1 (Oryza sativa), 5'ss of exon 2
lower sequence: AT1G55930.1 (Arabidopsis thaliana), 5'ss of exon 2
GTTCGTGAGTTGGCTGAAAAGGAACCTGAAAATGGTGTTTTCAGAATGCTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAACgtaatttattaaacctatgtgttctgccatgtttattatattttttttctataatccatattatgtcattgagttcaatccatacccacaatatgccact
|| || |||||||||||||| || ||||||||||| |||||||| |||||||| |||||||||||  | ||  ||||||||||||| ||||| ||||||||||   ||    ||||  |||      |  || || |   | ||  ||  ||||  | || | || || | ||   ||  |          |      
GTGCGCGAGTTGGCTGAAAAAGAGCCTGAAAATGGCGTTTTCAGGATGCTCCGCAGTGATGTTACCAGATTTTTGACAACCATACTTATTGGAACAACgtaatg-gttttttctattagttagaatgttgttttttttaatgttcgcttgaatc-gttttgtctc-ttaactttgttctttggatttttcttag----

upper sequence: LOC_Os03g39640.1 (Oryza sativa), 5'ss of exon 2
lower sequence: AT3G13070.1 (Arabidopsis thaliana), 5'ss of exon 2
GTTCGTGAGTTGGCTGAAAAGGAACCTGAAAATGGTGTTTTCAGAATGCTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAACgtaatttattaaacctatgt-------gttctgccatgtttattatattttttttctataatcc-atattatgtcattgagttcaatccatacccacaatatgccact
|| |||||||||||||| || ||||| || |||||||| |||||||||||||| |||||||| ||  | ||| |||| || ||||| ||||| |||||||||||  ||   ||||  |       ||  |   | | ||  ||||  | || ||| | |||  |  |  |||  |||   | |                       
GTGCGTGAGTTGGCTGAGAAAGAACCAGAGAATGGTGTATTCAGAATGCTCCGGAGTGATGTCACCAGATTCTTGACGACTATACTTATTGGAACAACgtaattgttttttcctagatatgaatcgtctttagaggattgctataaatattgtctcttatcttaggtcttgtggttggtcttag----------------------

upper sequence: LOC_Os03g39640.1 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv19s0090g01820.t01 (Vitis vinifera), 5'ss of exon 2
GTTCGTGAGTTGGCTGAAAAGGAACCTGAAAATGGTGTTTTCAGAATGCTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAACgtaatttattaaacctatgtgttctgccatgtttattatattttttttctataatccatattatgtcattgagttcaatccatacccacaatatgccact
|| |||||||| |||||||||||  |||| |||||||| |||| ||||||||| |||||||||||||| ||| | || || ||||| || ||||||||||||| |     |  |  || |  || |||  |  || |||  | |||  | | || || | || |  ||   |   ||  |||      || | |    
GTGCGTGAGTTAGCTGAAAAGGAGTCTGAGAATGGTGTCTTCAAAATGCTCCGCAGTGATGTTACTCGTTTCTTAACGACTATACTTATAGGCACAACgtaatgtc----attttcgt-tgttgacattatggtt-tatcatgttttcagattcgatttgattttgtttcttatcatagatattgtttatgttctcag

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|29634884|gb|CB639893.1|CB639893
EST:     CTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAAC                         TGTGGTCAACATTGGCGCAACAGCAATTGTTACTGAGGCGGCAACTGCAAT
genomic: CTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAACgtaatttatt ... tgtatgaaagTGTGGTCAACATTGGCGCAACAGCAATTGTTACTGAGGCGGCAACTGCAAT
EST: gi|29634823|gb|CB639832.1|CB639832
EST:     CTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAAC                         TGTGGTCAACATTGGCGCAACAGCAATTGTTACTGAGGCGGCAACTGCAAT
genomic: CTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAACgtaatttatt ... tgtatgaaagTGTGGTCAACATTGGCGCAACAGCAATTGTTACTGAGGCGGCAACTGCAAT
EST: gi|29634802|gb|CB639811.1|CB639811
EST:     CTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAAC                         TGTGGTCAACATTGGCGCAACAGCAATTGTTACTGAGGCGGCAACTGCAAT
genomic: CTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAACgtaatttatt ... tgtatgaaagTGTGGTCAACATTGGCGCAACAGCAATTGTTACTGAGGCGGCAACTGCAAT