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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctatgcagagttccagattgttcacatcttgaatactccttttgctgatatctgattctgacag

Basic information

species Oryza sativa
transcript LOC_Os07g47530.1
intron # 22
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 22
lower sequence: GRMZM2G157621_T03 (Zea mays), 5'ss of exon 22
TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctatgcagagttccagattgttcac-atcttgaatactcctt---ttgctgatatc-------tgattctgacag
||| |||||||| || || |||||||||||||| ||||||||||||||||||||||| || ||||||||||||||||||||||| || |||||||||||||||||   | |  |  | ||| |  |  || || |||||| | || | || ||||  ||   |||||||| ||       | | | | ||||
TGGTCCACCTGGCACCGGTAAGACCATGCTTGCCAAAGCTGTTGCAACAGAGGCTGGTGCTAATTTTATCAACATATCAATGTCAAGCATTGCTTCAAAGgtact---tgtgcaacgttatactca--tcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacag

upper sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 22
lower sequence: GLYMA10G02400.1 (Glycine max), 5'ss of exon 21
TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctatgcagagttccagattgttcacatcttgaatactccttttgctg---atatctgattctgacag------
||| || ||||| || || || || |||||||| || ||||| ||||| || ||||| || ||||| || ||||| |||||||| || ||| ||||||||||| |    || || || ||       ||   |  | ||     |||| || || |  |  |     | || || || ||   |      
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtattaatgttgta-agttacttttttttgtggtgtattt---ccttgtatgcttcagtgacaagaaaaatatggttttgtttgttgcag

upper sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 22
lower sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctatgcagagttccagattgttcacatc-ttgaatactccttttgctg---atatctgattctgacag------
||| || ||||| || || || || |||||||| || ||||| ||||| || ||||| || ||||| || ||||| |||||||| || ||| |||||||||||      || || |    |      ||     ||||  |  || ||| || || |  || |     | |  || || ||   |      
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattact------ttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcag

upper sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 22
lower sequence: AT1G02890.1 (Arabidopsis thaliana), 5'ss of exon 21
TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctat-gcagagttccagattgttcacatcttgaatactccttttgctgatatctgattctgacag
||| || ||||||||||||||||| ||||| || |||||||| ||||| |||||||| || || |||||||| || |||||||| || ||| ||||||||||| |       || | |  |  |     || | | ||||  | | |   ||    |||    ||| || |  |   |    
TGGACCGCCTGGTACGGGGAAGACAATGCTGGCAAAAGCTGTAGCAACCGAGGCTGGGGCAAACTTTATCAATATTTCAATGTCCAGCATTACTTCAAAGgtattgatcacttaaaacggttacctgactctatagtgttttc-tttgagattagacttgacttgagatttcgtgtag----

upper sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 22
lower sequence: AT1G02890.2 (Arabidopsis thaliana), 5'ss of exon 21
TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctat-gcagagttccagattgttcacatcttgaatactccttttgctgatatctgattctgacag--------------------
||| || ||||||||||||||||| ||||| || |||||||| ||||| |||||||| || || |||||||| || |||||||| || ||| ||||||||||| |       || | |  |  |     || | | ||||  | | |   ||    |||    ||| || |  |  |    |                    
TGGACCGCCTGGTACGGGGAAGACAATGCTGGCAAAAGCTGTAGCAACCGAGGCTGGGGCAAACTTTATCAATATTTCAATGTCCAGCATTACTTCAAAGgtattgatcacttaaaacggttacctgactctatagtgttttc-tttgagattagacttgacttgagatttcgtg-tagtggtttggtgagggagagaagta

upper sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 22
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctatgcagagttccagattgttcacatcttgaatactcctt-ttgctgatatctgattctg-acag
||| || |||||||| || ||||| ||||| || ||||| || ||||| ||||||||||| ||||| ||||| || |||||||| || ||| |||| ||||||   |   || || | ||||      |        |||   |  ||| |   | |      | | |    || ||   |||
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctcataaagtgatatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag

upper sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 22
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 5'ss of exon 21
TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctatgcagagttccagattgttcacatcttgaatactccttttgctgatatctga--ttctgacag---------
||| || ||||| || || || || |||||||| || || |||||||| ||||| || || |||||||||||||||||||||||||||||  |||||||||||     | | |  | | |    | |  | |    | || | | |  ||  ||  |||||   |||| |||  | |||| |          
TGGGCCTCCTGGGACTGGAAAAACAATGCTTGCGAAGGCGGTTGCAACTGAGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgta---aatatgtgcatcaaaatggtga-ctatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcag

upper sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 22
lower sequence: EFJ31084 (Selaginella moellendorffii), 5'ss of exon 9
TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctatgcagagttccagattgttcacatcttgaatactccttttgctgatatctgattctgacag
||| || || || || || ||||||||||||||||| || ||||| ||||||||||| || ||||| ||||| || |||||||| |  ||||| || || |||  | ||| |    |  ||  || |||| || ||     | | ||     ||   || || |                 
TGGTCCTCCAGGAACTGGTAAGACCATGCTTGCTAAGGCGGTTGCTACAGAGGCTGGTGCAAATTTCATCAATATTTCAATGTCCACAATTGCATCTAAAgtaagcactt-accacgtgat--agtgttcaagtttac---cgtttt-----ctttcttcgcag-----------------

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|29664460|gb|CB660735.1|CB660735
EST:     AGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAG                         TGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGC
genomic: AGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctt ... attctgacagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGC
EST: gi|58688870|gb|CK077557.1|CK077557
EST:     AGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAG                         TGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGC
genomic: AGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctt ... attctgacagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGC
EST: gi|29669556|gb|CB665831.1|CB665831
EST:     AGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAG                         TGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGC
genomic: AGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctt ... attctgacagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGC