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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAATTGATTTTGTAAAGGCTCTCTGTAAAGTTTCCATGGAGGAATTGCGATCTGCTTCTGATCCACGGGTTTTTAGTCTGACAAAGATTGTTGAGATTGCgtaagtacagggcttcctatattcagattgcaatgtatttccccatacttttctttgatgtatttatagtatataggcagtatatgattgtgtttccctttctcttgtag

Basic information

species Oryza sativa
transcript LOC_Os03g14260.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G058870_T01 (Zea mays), 5'ss of exon 7
TAATTGATTTTGTAAAGGCTCTCTGTAAAGTTTCCATGGAGGAATTGCGATCTGCTTCTGATCCACGGGTTTTTAGTCTGACAAAGATTGTTGAGATTGCgtaagta---cagggcttcct----atattcagattgcaatgtatttccccatacttttctttgatgtatttatagtatataggcagtatatgattgtgtttcccttt---ctcttgtag
||||||||||||| |||||||||||||| ||||| ||||||||||| || || |||||||||||||| |||||||||||||||||||| || ||||| ||||||| |      |||||  |    ||    | |||||||||| |||    | | || | || | | |          ||||| ||||  |||||| | |||   |||   |||||||||
TAATTGATTTTGTGAAGGCTCTCTGTAAGGTTTCAATGGAGGAATTACGTTCGGCTTCTGATCCACGAGTTTTTAGTCTGACAAAGATAGTCGAGATAGCgtaaggaatctgaggctttattatcattactacattgcaatgtgtttttttacatttctgttcggtct----------tatagacagtgcatgattttttttttttttgccctcttgtag

upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA01G34560.1 (Glycine max), 5'ss of exon 8
TAATTGATTTTGTAAAGGCTCTCTGTAAAGTTTCCATGGAGGAATTGCGATCTGCTTCTGATCCACGGGTTTTTAGTCTGACAAAGATTGTTGAGATTGCgtaagtacagggcttcctatattcagattgcaatgtatttccccatacttttctttgatgtatttatagtatataggcagtatatgattgtgtttccctttctcttgtag
|||| |||||||| |||||||| || || || ||||||||||||||| | ||| | ||||||||||| ||||| || || ||||||||||||||||||||||| |||     |  |    | |   |      |   | |       |||  || |||  | ||  |  |    | |       |  ||||| |||  |   |   |   
TAATAGATTTTGTTAAGGCTCTATGCAAGGTCTCCATGGAGGAATTGAGGTCTCCATCTGATCCACGTGTTTTCAGCCTTACAAAGATTGTTGAGATTGCgtatgtattactcacctaccacttcaaacatgctacctctttttgc-cttccctctgaatttttctttttcctcatg------gttcttgtggttcattggttgggg---

upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA18G45340.1 (Glycine max), 5'ss of exon 7
TAATTGATTTTGTAAAGGCTCTCTGTAAAGTTTCCATGGAGGAATTGCGATCTGCTTCTGATCCACGGGTTTTTAGTCTGACAAAGATTGTTGAGATTGCgtaagtacagggcttcctatattcagattgcaatgtatttccccatacttttctttgatgtatttatagtatataggcagtatatgattgtgtttccctttctcttgtag
|||| |||||||| |||||||| || || || ||||||||||||||| | ||| | ||||||||||| ||||| || || ||||||||||||||||||||||| |||     |  |      |   |      |   | |       |||  || |||  | ||  |  |    | |       |  ||| | |||  |   |   |   
TAATAGATTTTGTTAAGGCTCTATGCAAGGTCTCCATGGAGGAATTGAGGTCTCCATCTGATCCACGTGTTTTCAGCCTTACAAAGATTGTTGAGATTGCgtatgtattactcacctaccccttcaaacatgctacctctttttgc-cttccctctgaatttttctttttcctcatg------gttcttggggttcattggttgggg---

upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA09G40480.1 (Glycine max), 5'ss of exon 7
TAATTGATTTTGTAAAGGCTCTCTGTAAAGTTTCCATGGAGGAATTGCGATCTGCTTCTGATCCACGGGTTTTTAGTCTGACAAAGATTGTTGAGATTGCgtaagtacagggcttcctatattcagattgcaatgtatttccccatacttttctttgatgtatttatagtatataggcagtatatgattgtgtttccctttctcttgtag
|||| |||||||| |||||| | || ||||| |||||||||||| |  ||||| | |||||||||||||| || || || |||||||| |||||||||||||| |||       |  | | ||   | ||||    | | ||         |||    | ||||| |  |  |      |   || | | |  |   |  |         
TAATAGATTTTGTTAAGGCTTTATGCAAAGTCTCCATGGAGGAACTCAGATCTCCATCTGATCCACGGGTGTTCAGCCTTACAAAGATAGTTGAGATTGCgtatgtatt--atctttttttttactaatgcatgccactcccttgcttccctctgaactttatttttgctcgagtctttggtgattagtataataaacaata--------

upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA03G02610.1 (Glycine max), 5'ss of exon 7
TAATTGATTTTGTAAAGGCTCTCTGTAAAGTTTCCATGGAGGAATTGCGATCTGCTTCTGATCCACGGGTTTTTAGTCTGACAAAGATTGTTGAGATTGCgtaagtacagggcttcctatattcagattgcaatgtatttccccatacttttctt-tgatgtatttatagtatataggcagtatatgattgtgtttccctttctcttgtag
|||| |||||||| |||||||| || || || ||||||||||||||| | ||| | ||||||||||| ||||| || || |||||||| |||||||||||||| |||     |  |   || |   |   |||  ||  ||    | | || | | |||  | ||  |  |    | |       |  ||| | |||  |   |   |   
TAATAGATTTTGTTAAGGCTCTATGCAAGGTCTCCATGGAGGAATTGAGGTCTCCATCTGATCCACGTGTTTTCAGCCTTACAAAGATGGTTGAGATTGCgtatgtattactcacctactacttcaa--acaagctacctctttttgccttccctctgactttttctttttcctcatg------gttcttggggttcattggttgggg---

upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT3G60860.1 (Arabidopsis thaliana), 5'ss of exon 7
TAATTGATTTTGTAAAGGCTCTCTGTAAAGTTTCCATGGAGGAATTGCGATCTGCTTCTGATCCACGGGTTTTTAGTCTGACAAAGATTGTTGAGATTGCgtaagtacagggcttcctatattcagattgcaatgtatttccccatacttt-tctttgatgtatttatagtatataggcagtatatgattgt-gtttccctttctcttgtag--------------
|||| || ||||| || |||||||| |||||||| ||||| || ||||| ||| ||||| ||||||| |||||||| || ||||||||||||||||| |||||||         |||||  |||      |  |||  |  |  |||||   | |  ||    ||    ||   |||  | | || |  ||| || |  |  | |  |||                
TAATAGACTTTGTTAAAGCTCTCTGCAAAGTTTCTATGGATGAGTTGCGGTCTCCTTCTAATCCACGCGTTTTTAGCCTCACAAAGATTGTTGAGATAGCgtaag-----aatctcctagtttcgttcctctctgttctctcatatactgcatataagagacgttctctgttcttagcaactttaagtatgtagtctgacaattttctgtttgtcatttgtgacag

upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G01960.1 (Arabidopsis thaliana), 5'ss of exon 7
TAATTGATTTTGTAAAGGCTCTCTGTAAAGTTTCCATGGAGGAATTGCGATCTGCTTCTGATCCACGGGTTTTTAGTCTGACAAAGATTGTTGAGATTGCgtaagta-cagggcttcctatattcagattgcaatgtatttccccatacttttct-ttgatgtatt-tatagtatataggcagtatatgattgtgtttccctttctcttgtag
||||||| ||||| || || ||||| |||||||||||||| || || |||||| | |||||||||||||| || || || ||||||||||| || || ||||||| | ||    || || ||       ||   ||| ||| | ||  || |  | || ||    | | |  | ||  |||||                              
TAATTGACTTTGTTAAAGCCCTCTGCAAAGTTTCCATGGATGAGTTACGATCTCCATCTGATCCACGGGTCTTCAGCCTAACAAAGATTGTGGAAATAGCgtaaggatcaatcttttctttacgatatctgttttgtttttgctcactctctcttatttataccctgtttgttgtaatggcag------------------------------

upper sequence: LOC_Os03g14260.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv15s0048g00800.t01 (Vitis vinifera), 5'ss of exon 7
TAATTGATTTTGTAAAGGCTCTCTGTAAAGTTTCCATGGAGGAATTGCGATCTGCTTCTGATCCACGGGTTTTTAGTCTGACAAAGATTGTTGAGATTGCgtaagtacagggcttcctatattcagattgcaatgtatttccccatacttttctttgatgtatttatagtatataggcagtatatgattgtgtttccctttctcttgtag-----------------------
||||||| ||||| ||||||||||| || || || || || |||||||||||||| ||||||||| | |||||||| || ||||||||||||||||||||||| | |     ||   | | |   | |     | ||     ||||| |  |  || || ||||  |  ||| | | |||    |  |     ||    |    || ||                        
TAATTGACTTTGTTAAGGCTCTCTGCAAGGTCTCTATAGAAGAATTGCGATCTGCATCTGATCCAAGAGTTTTTAGCCTTACAAAGATTGTTGAGATTGCgtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatat-ttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacag

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|29628227|gb|CB633238.1|CB633238
EST:     CAAAGATTGTTGAGATTGC                         GCACTACAATATGAATCGCATCAGGCTTGTCTGGTCAAGCATATGGCATGT
genomic: CAAAGATTGTTGAGATTGCgtaagtacag ... tctcttgtagGCACTACAATATGAATCGCATCAGGCTTGTCTGGTCAAGCATATGGCATGT