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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatctataattcataccattcgaccctcttcccccacccagaacactggcaatgtgattgaaaacctcattttggccaaagatattttatacatgaaatgaaggtttccatgtaactgaaattctgattatagttcgtttctttgatgcag

Basic information

species Oryza sativa
transcript LOC_Os05g03820.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g03820.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G111579_T01 (Zea mays), 5'ss of exon 8
CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatctataattcataccattcgaccctcttcccccacccagaacactggcaatgtgattgaaa-acctcattttggccaaagatattttatacatgaaatgaaggtttccatgtaactgaaattctgattatagttcgtttctttgatgcag
|||||| ||||| |||||||| || || ||  |||||||||| |||||||| || || ||||||||||||||||  |||    || |    | ||  ||    |||||||||   |      | ||| ||||||||   |||||| ||  |   | | ||           ||| |  |||||  | |    |   | | |                         
CCATATCTGGACAGATACTGATAATAATCGTGCAGGGATGCTCCCTTTTGTCTTTGACGACTCATTTGGgttagc-tctccttttga----actc--cctctctcccccacctttagtgtcagtaatttgattgaattgcctcatatttcctttaaagatgaagcggtcctaatcatagtttctgtttg---ggggtgcag-------------------------

upper sequence: LOC_Os05g03820.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G020096_T01 (Zea mays), 5'ss of exon 8
CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatctataattcataccattcgaccctcttcccccacccagaacactggcaatgtgattgaaaacctcattttggccaaagatattttatacatgaaatgaaggtttccatgtaactgaaattctgattatagttcgtttctttgatgcag
|||||| ||||| ||||| || ||||||||  |||||||||| |||||||| || ||  ||||||||||||||| || | |  ||   ||       |||   |||||||||  ||   |  | ||| |||||||   | ||||| |    |||||| ||||  |  |||||                      || || |||||||||  |||    | |||||
CCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGTCTTTGACAACTCATTTGGgttagcatttct--tttgaact------ccccactcccccaccttgagtgccagtaatttgattgattgcttcattctctttaaagatgttttcaatgtgaaa--------------------gcatcctaattatagtttcttttgggggtgcag

upper sequence: LOC_Os05g03820.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA05G37850.3 (Glycine max), 5'ss of exon 9
CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatctataattcataccattcgaccctcttcccccacccagaacact--ggcaatgtgattgaaaacctcattttggccaaagatattttatacatgaaatgaaggtttccatgtaactgaaattctgattatagttcgtttctttgatgcag
||||||||||||||||||||| ||  ||||| |||| ||||| |||||||| || |||||||| ||||||| ||    | |  |    |  ||       |    |   | |            ||  | ||| |  |  | ||||| |   |      |||| | | | |                                                        
CCATATTTGGACTGATACTGATAAGGACCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGGgtaagagattct--tctgaattatgaagaattaagactgaagctgttgtttctaagccttttgactctaggcttcattgttttcctgtgaatttaaaagaag--------------------------------------------------------

upper sequence: LOC_Os05g03820.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA08G01750.1 (Glycine max), 5'ss of exon 9
CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttag---tatctataattcat--accattcgaccctcttcccccacccagaacactggcaatgtgattgaaaacctcattttggccaaagatattttatacatgaaatgaaggtttccatgtaactgaaattctgattatagttcgtttctttgatgcag
||||||||||||||||||||||||  | ||| |||| ||||| |||||||| || |||||||| ||||||| ||   | | | | | | ||  |  |||    |     |          ||  ||     | ||||   |  | ||| | |   |      |||| | | | |                                                        
CCATATTTGGACTGATACTGACAAGGATCGCACAGGCATGCTGCCTTTTGTTTTTGATGACTCTTTTGGgtaagagatttttctgaattatgaataattaagactgaaactattgtttctaagcct-----tctgatgctaggcttcactgttttcgtgtgaatttaaaagaag--------------------------------------------------------

upper sequence: LOC_Os05g03820.3 (Oryza sativa), 5'ss of exon 9
lower sequence: AT4G23100.3 (Arabidopsis thaliana), 5'ss of exon 9
CCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatctataattcataccattcgaccctcttcccccacccagaacactggcaatgtgattgaaaacctcattttggccaaagatattttatacatgaaatgaaggtttccatgtaactgaaattctgattatagttcgtttctttgatgcag
||| || ||||| || ||||||||  ||||| |||| ||||| || ||||| ||||||||||| ||||||| |||||| ||  || || | ||   |  |  || |   ||   |     |||   ||  ||   || | ||       |||| ||   | | | |      |                                                    
CCACATATGGACAGACACTGACAAGGACCGCACAGGAATGCTACCATTTGTTTTCGATGACTCTTTTGGgtgagtatcgatgtttaat-ctatgaaaaacaattacattacattgg---ttggtt-tggtatgagaagcttctcaaaaaccaatgactctgtct-cgcattcttg--------------------------------------------------

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|55411431|gb|CV723807.1|CV723807
EST:     GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG                         ATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA
genomic: GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatct ... tttgatgcagATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA
EST: gi|11442624|gb|BF430527.1|BF430527
EST:     GCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG                         ATTTGAGCGATATGTGGACTACGCATTAGATGTCCCGATGTATTTTGTCTA
genomic: GCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatct ... tttgatgcagATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA
EST: gi|58663354|gb|CK052040.1|CK052040
EST:     GACTCATTTGG                         ATTTGAGCGATATGTGGACTACGCATTAGATGTCCCGATGTATTTTGTCTA
genomic: GACTCATTTGGgttagtatct ... tttgatgcagATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA
EST: gi|58695197|gb|CK083884.1|CK083884
EST:     TGACTCA-TTGG                         A-TTGAGCGATATGTGGACTACGCATTA-ATGTCCCGATGTATTTTGTCTA
genomic: TGACTCATTTGGgttagtatct ... tttgatgcagATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA
EST: gi|58658531|gb|CK047211.1|CK047211
EST:     GACAACAAACGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG                         GTTTGAGCGATATGTGGACTATGCATT
genomic: GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatct ... tttgatgcagATTTGAGCGATATGTGGACTACGCATT
EST: gi|218498945|gb|FG948066.1|FG948066
EST:     GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG                         ATTTGAGCGATATGTGGACTACGCATTAGATGTCCCGATGTATTTTGTCTA
genomic: GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatct ... tttgatgcagATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA
EST: gi|58663415|gb|CK052101.1|CK052101
EST:     GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG                         ATTTGAGCGATATGTGGACTACGCATTAGATGTCCCGATGTATTTTGTCTA
genomic: GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatct ... tttgatgcagATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA
EST: gi|218500233|gb|FG945122.1|FG945122
EST:     GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG                         ATTTGAGCGATATGTGGACTAAGCATTAGATGTCCCGATGTATTTTGTCTA
genomic: GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatct ... tttgatgcagATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA
EST: gi|33676123|gb|CF304362.1|CF304362
EST:     GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG                         ATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA
genomic: GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatct ... tttgatgcagATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA
EST: gi|29679436|gb|CB675711.1|CB675711
EST:     GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG                         GTTTGAGCGATATGTGGACTATGCATTAGATGTCCCGATGTATTTTGTCTA
genomic: GACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGgttagtatct ... tttgatgcagATTTGAGCGATATGTGGACTACGCATTAGATATCCCGATGTATTTTGTCTA