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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGGAGTCAATATTAAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggctgtattcctatttatttgtgtcaatattttcatccgatttagtttattgctatgttcgcagaacacattcttattatgtcagtacgttattcaaatctag

Basic information

species Oryza sativa
transcript LOC_Os03g44900.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g44900.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G340749_T01 (Zea mays), 5'ss of exon 4
ATTGGAGTCAATATTAAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggctgtattcctattta----------tttgtgtca-atattttcatccgatttagtttattgctatgttcg--cagaacacattcttattatgtcagtac-gttattcaaatctag---------------------------------------------------------------------
|||||||||||| || |||||||||||||||||||||||||||||||||||||| |||||||| |||||||| || ||||| |||||||||||||| ||||| || |||  ||| || ||           | ||  ||  | ||  |    ||    |  | |   |||  || |  | |          ||||||     | |  || || ||  |||                                                                      
ATTGGAGTCAATCTTGAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTCAATGATGTTAAAGATTTTCTTGATGATTATGTTGAACGTAATCAGgtatgtctgccttcatagttgaccctcatactctgcatcccaaatcataggtcgtccaaaatgacctctaatttggaacggggagggggagtattatcctttttctattgttgaatgctaattgtgataacgtacagacatatgatcggccttttatttgttattttttgtttttttcgctcatgtttag

upper sequence: LOC_Os03g44900.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AC197122.3_FGT003 (Zea mays), 5'ss of exon 7
ATTGGAGTCAATATTAAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggctgtattcctattt-atttgtgtcaatattttcatccgatttagtttat------tgctat---gttcg---cagaacacattcttattatgtcagtacgttattcaaatctag--------------------------------------------------------------------
|||||||||||| ||  | ||||||||||||||||||||||||||||||||||| |||||||| |||||||| || |||||||||||||||||||| ||||| || |||  ||| || || | |  ||         || |    | ||| ||||      ||  ||    || |   | |       |  |||  | |   |   || || |   |||                                                                     
ATTGGAGTCAATCTTGCGGCTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTCAATGATGTTAAAGATTTTCTTGATGACTATGTTGAACGTAATCAGgtatgtctgccttcgtagttgactcatgctctctccatcctgaattataggttatccaaaatgacatctaatttggaacggggagggataatatcctttttttgtattgttgactgctaattgtgataacatacaggcatatgatcgaccttttatttgttattttcgttttcttcattcatatttag

upper sequence: LOC_Os03g44900.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA16G26850.1 (Glycine max), 5'ss of exon 6
ATTGGAGTCAATATTAAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggctgtattcctatttatttgtgtcaatat--tttcatccgatttagtttattgctatgttcgcagaacacattcttattatgtc--agtacgttattcaaatctag------------------------------------------------------------------
||  || |  || || || ||  | |||||||||||  | ||||| ||||| ||||||||||| ||||||||||||||||||||||| || ||||| ||||| || || |  |    |  | |  || || | |  ||| |    ||  |   |||  |   |       | |   |   || |   |   |  |   | ||  | | |                                                                    
ATGTGAATTTATCTTGAGGCTACTAGATAATGATGAACTAAGTCCAGAGCAGGTTAATGATGTCAAAGATTTCCTGGATGACTATGTAGACCGTAATCAGgtttgtcttttatagcttgcactcttgccattttgcttttaaaaaataaaaactatcaccgaggaaatttaccctttgtgtagtcctttcaaagaaagtcttagagtttgataccatgcaaaaattatgaattggtattaattttctgtctttcctatttttcattttattttacag

upper sequence: LOC_Os03g44900.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA02G07830.1 (Glycine max), 5'ss of exon 6
ATTGGAGTCAATATTAAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggct-gtattcctatttatttgtgtcaatattttcatccgatttagtt--tattgctatgttcgcagaacacat-tcttattatgtcagtacgttattcaaatctag-------------------------------------------------------------------
||  || |  || || || ||  | |||||||||||  | ||||| ||| | ||||||||||| || |||||||||||||||||||| || ||||| ||||| ||||| ||||  || |  | |  || || | || |  |   |  ||     |||  |   ||      | |   | | || |  | |||    |    | | |  | |                                                                   
ATGTGAATTTATCTTGAGGCTACTAGATAATGATGAACTAAGTCCAGAGGAGGTTAATGATGTCAAGGATTTCCTGGATGACTATGTAGACCGTAATCAGgtttggcttgtatagct-tgcactcttgccatttttcttttaaaaaataaacactatcaccgagtaattttaccctttgtattgtcctttcaaagagagtcttagagtttgataccatgcaaaatttatgaattggtattaattttctgtctttcgtatctttcattttattttacag

upper sequence: LOC_Os03g44900.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA16G04690.2 (Glycine max), 5'ss of exon 6
ATTGGAGTCAATATTAAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggctgtattcctatttatttgtgtcaatattttcatccgatttagtttattgctatgttcgcagaacacattcttattatgtcagtacgttattcaaatctag
||  || |  || || || ||  | ||||||||||| || ||||||||| | ||||||||||| ||||||||| |||||||||||||||| ||||| ||||| || || | |    ||   | ||  | || | ||  |  |   | |||  ||    |||||  |||| |  ||   ||  |||  ||   |  |  ||||  |  
ATGTGAATTCATTTTGAGGCTACTAGATAATGATGAATTAAGTCCTGAGGAGGTTAATGATGTCAAAGATTTCTTGGATGACTATGTTGAGCGTAATCAGgtttgtct-tttagaaatcattctgcttaaaaaattggacac--ctgagtaaatgttgatgttt-cagacc-tatgtatagcatggaagagtgagaaacaaaaat--

upper sequence: LOC_Os03g44900.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT5G18230.1 (Arabidopsis thaliana), 5'ss of exon 6
ATTGGAGTCAATATTAAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggctgtattcctatttatttgtgtcaatattttcatccgatttagtttattgctatgttcgcagaacacattcttattatgtcagtacgttattcaaatctag---------
 |||||    || || || ||| |||| |||||||| || ||||| || ||||| ||||| || |||||||| |||||||| ||||||||||| || ||||| || || |||    ||     ||    | | |  | ||  | | ||   |     |        | || ||| |  |||||| |  ||||  | || || | |           
GTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAGTAAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctg-ctatatctaaatc---ctggaatattttgcttatgtgttataccctgggtttcgaacattaaaatacacttatattatctt-gtactgtgtttaactttcttctatgtag

upper sequence: LOC_Os03g44900.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv08s0007g07570.t01 (Vitis vinifera), 5'ss of exon 6
ATTGGAGTCAATATTAAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggctgtattcctattta--tttgtgtcaatattttcatccgatttagtttattgctat-gttcgcagaacacattcttattatgtcagtacgttattcaaatctag
 || ||    || || || ||  ||||||||||||| |||||||||||||| || |||||||| ||||| ||| ||||||| ||||| |||||||| ||||| |   |   |     ||||  ||||| ||  ||||||| |  ||  |||  |    || |     |||  | | |||   | ||  |   | | ||            
GTTAGAACTGATTTTGAGGCTACTGGATAATGATGAATTGAGTCCTGAGCAGGTCAATGATGTAAAAGACTTCTTGGATGATTATGTGGAACGTAATCAGgtttaagttgctcgaactttaattttgtttctttattttcctt-gacatagcctgccacttttagatgcaacatatattaagagtacatgcatgcattgcc---------

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|58673547|gb|CK062233.1|CK062233
EST:     GTTGAACGT-ACCAG                         GAAGATTTTGATGAATTTAGTGATGTGGAAGAGCTCTATAGCACATTACCT
genomic: GTTGAACGTAACCAGgtgtggctgt ... tcaaatctagGAAGATTTTGATGAATTTAGTGATGTGGAAGAGCTCTATAGCACATTACCT
EST: gi|66918088|gb|CX104936.1|CX104936
EST:     AAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAG                         GAAGATTTTGATGAATTTAGTGATGTGGAAGAGCTCTATAGCACATTACCT
genomic: AAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggctgt ... tcaaatctagGAAGATTTTGATGAATTTAGTGATGTGGAAGAGCTCTATAGCACATTACCT
EST: gi|29638285|gb|CB643294.1|CB643294
EST:     AAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAG                         GAAGATTTTGATGAATTTAGTGATGTGGAAGAGCTCTATAGCACATTACCT
genomic: AAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggctgt ... tcaaatctagGAAGATTTTGATGAATTTAGTGATGTGGAAGAGCTCTATAGCACATTACCT