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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCAAAACACAACAGCTTTTAAAGAAGTTGCGATAATTCGTCATCCACGTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatgtagggttctatatggaataaatatgagttagattaacaaaaatctgttattgaggtgcttcgtcatagacatgccatgccatgtatgatccgtaataggtgcaactgtgcttgttcttatgttagtcttgtttgtgttctatggcag

Basic information

species Oryza sativa
transcript LOC_Os01g64780.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g64780.4 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G046098_T02 (Zea mays), 5'ss of exon 5
ATCAAAACACAACAGCTTTTAAAGAAGTTGCGATAATTCGTCATCCACGTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatgtagggttctatatggaataaata-tgagttagattaacaaaaatctgttattgaggtgcttcgtcatagacatgccatgccatgtatgatccgtaataggtgcaactgtgcttgttcttatgttagtcttgtttgtgttctatggcag
||||||| || |||||||| ||||||||||| ||||||||||||||||| ||||||||||||||||||||||| ||||||||||| || || ||||||||| || || |     | ||||| ||| |  |  |||   | |  |   | | ||| |         | ||  | |   | | | ||| |      ||| || ||                                                     
ATCAAAATACGACAGCTTTCAAAGAAGTTGCAATAATTCGTCATCCACGAATTGGTGAATATGCATTTGGATTCATAACATCAACGGTGGTCCTTCAGgtacttgatctt---ctatatatagaaaagttgctgaagcaaa--attcatattctatgtacagaaaggttgctgaggcaaaagtcatacttctagtga-ccatat----------------------------------------------------

upper sequence: LOC_Os01g64780.4 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G149662_T01 (Zea mays), 5'ss of exon 5
ATCAAAACACAACAGCTTTTAAAGAAGTTGCGATAATTCGTCATCCACGTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatgtagggttctatatggaataaatatgagttagatta---acaaaaatctgttattgaggtgcttcgtcatagacatgccatgccatgtatgatccgtaataggtgcaactgtgcttgttcttatgttagtcttgtttgtgttctatggcag
||||||| || || ||||| ||||||||||| ||||||||||||||||| ||||||||||||||||||||||| |||||||||||||| || ||||||||| || || ||       || | |   ||  |  | | | |||    | | |     |||  |||||       |||||  | |    ||  |  ||||| ||                                                        
ATCAAAATACGACTGCTTTCAAAGAAGTTGCAATAATTCGTCATCCACGAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgatatatatagaaatgttgctgaagaaaaattcatattctatatataggaaagttgctgaggcaaaat-tcata--cttttagtga-acatatgagcc--------------------------------------------------------

upper sequence: LOC_Os01g64780.4 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA06G15360.2 (Glycine max), 5'ss of exon 5
ATCAAAACACAACAGCTTTTAAAGAAGTTGCGATAATTCGTCATCCACGTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatgtagggttctatatggaataaatatgagttagattaacaaaaatctgttattgaggtgcttcgtcatagacatgccatgccatgtatgatccgtaataggtgcaactgtgcttgttcttatgttagtcttgtttgtgttctatggcag
||||||| || || || |||||||| || || || || ||||| || ||| ||||||||||||| ||||||||||| ||||||||||||  ||| ||||||     |   |   ||  |||  | |   | |  |  |   |    |   | |  | |     |  ||  | | | |    |     ||  |   ||   || |                                                   
ATCAAAATACCACTGCCTTTAAAGAGGTAGCAATTATCCGTCACCCGCGTGTTGGTGAATATGCGTTTGGATTTATTACATCAACTGTTACTCTACAGgtaccctgtactg---tcgctataaatt---tgtttgccaaccttgtgatggtttcctttctttat-tttgataacaaattaacttcaacaatttctattattattt--------------------------------------------------

upper sequence: LOC_Os01g64780.4 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA04G39490.1 (Glycine max), 5'ss of exon 5
ATCAAAACACAACAGCTTTTAAAGAAGTTGCGATAATTCGTCATCCACGTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatgtagggttctatatggaataaatatgagttagattaacaaaaatctgttattgaggtgcttcgtcatagacatgccatgccatgtatgatccgtaataggtgcaactgtgcttgttcttatgttagtcttgtttgtgttctatggcag
||||||| || || || |||||||| || || || || ||||| || ||| ||||||||||||||||||| ||||| |||||||||||| |||| ||||||              || | | |  | | ||| | || | ||| |||    || ||||| |  |   |     || | |||   ||  |||    | |    ||| | | |  ||   |    ||                              
ATCAAAATACCACTGCCTTTAAAGAGGTAGCAATTATCCGTCACCCGCGTGTTGGTGAATATGCATTTGGCTTTATTACATCAACTGTTATTCTACAGgta--------------ctgtgtagtgtcactataaatttgtttaccaa---cctcttatttatattgat-----taaatatg---tgtgatgagcaacca--cataagagaacttgacatcacact------------------------------

upper sequence: LOC_Os01g64780.4 (Oryza sativa), 5'ss of exon 4
lower sequence: AT1G43130.1 (Arabidopsis thaliana), 5'ss of exon 5
ATCAAAACACAACAGCTTTTAAAGAAGTTGCGATAATTCGTCATCCACGTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatgtagggttctatatggaataaatatgagttagattaacaaaaatctgttattgaggtgcttcgtcatagacatgccatgccatgtatgatccgtaataggtgcaactgtgcttgttcttatgttagtcttgtttgtgttctatggcag
| |||||||| || || |||||||| || || || || ||||| || |||||||||||||| |||||||||||||| |||||| | ||    |||||||| | | ||  ||      |  ||| | |||    ||| ||   |  |   |  || | |   | |  ||  |  | |  |                                                                            
ACCAAAACACTACTGCCTTTAAAGAGGTAGCAATCATCCGTCACCCTCGTATTGGTGAATACGCATTTGGATTTATTACATCATCGGTGACACTTCAGgtcagttattcagcaacaaaactggta-aaacccaagtaagcaaattagttacttgctctcatgctttttttttgttgtaacag-------------------------------------------------------------------------

upper sequence: LOC_Os01g64780.4 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv07s0031g02010.t01 (Vitis vinifera), 5'ss of exon 5
ATCAAAACACAACAGCTTTTAAAGAAGTTGCGATAATTCGTCATCCACGTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatgtagggttctatatggaataaatatgagttagattaacaaaaatctgttattgaggtgcttcgtcatagacatgccatgccatgtatgatccgtaataggtgcaactgtgcttgttcttatgttagtcttgtttgtgttctatggcag
| ||||| || || ||||||||||| || || || || |||||||||||| ||||||||||||||||||| ||||| |||||||| ||  | ||||||||| ||    |||      |||||  ||   | |   | | |||     ||   | ||  | | || |    | | ||   |    | || | | | || | ||   |                                                 
ACCAAAATACCACTGCTTTTAAAGAGGTAGCTATCATCCGTCATCCACGTGTTGGTGAATATGCATTTGGTTTTATTACATCAACAGTAATCCTTCAGgtacttt---taga---taatatg--atttctcttcttgaaatttgttcaagctttttgctcaagt-cagtttgagaggatttttgttcctttttttattcatatgtga------------------------------------------------

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|58665417|gb|CK054103.1|CK054103
EST:     GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAG                         ACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
genomic: GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatg ... tctatggcagACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
EST: gi|29626495|gb|CB631506.1|CB631506
EST:     GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAG                         ACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
genomic: GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatg ... tctatggcagACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
EST: gi|88429235|gb|CI690129.1|CI690129
EST:     GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAG                         ACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
genomic: GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatg ... tctatggcagACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
EST: gi|29683440|gb|CB679715.1|CB679715
EST:     GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAG                         ACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
genomic: GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatg ... tctatggcagACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
EST: gi|27547116|gb|CA765115.2|CA765115
EST:     GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAG                         ACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
genomic: GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatg ... tctatggcagACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
EST: gi|29688878|gb|CB685153.1|CB685153
EST:     GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAG                         ACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
genomic: GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatg ... tctatggcagACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
EST: gi|27920852|gb|CB096660.1|CB096660
EST:     GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAG                         ACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT
genomic: GTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatg ... tctatggcagACTGACAAAGGCGACGAAGAACTGTGCAGCGTTTATGTGCCAACAAATCAT