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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTTAGCCTTCCAGTTGATCGACGATGTTCTTGATTTCACAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacagccatcccaattttcctattatattttatcttagcaacttaatatccatttaacctccaacaaacatagaattaagagctcaacaattatt...

Basic information

species Oryza sativa
transcript LOC_Os06g46450.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g46450.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G014508_T02 (Zea mays), 5'ss of exon 10
GGTTTAGCCTTCCAGTTGATCGACGATGTTCTTGATTTCACAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacagccatcccaattttcctattatattt-tatcttagcaacttaatatccatttaacctccaacaaacatagaattaagagctcaacaattatt---
||| ||||||||||||| || || ||||||||||||||||| ||||| ||||||||||||||||||||||||||  ||||||| || || || | || |   |    | |||    ||| |||||   ||  ||   || || ||  | | |   || | ||      ||| ||     | | |  |  ||   
GGTCTAGCCTTCCAGTTAATTGATGATGTTCTTGATTTCACCGGCACCTCTGCATCCCTTGGGAAGGGTTCATTGTCTGATATTCGCCACgtgagaataattacttaagtttcttcattctatttacttcgcagtggctgaaaatgtaatca-tgtctatcat---ctgaaatatacatttatctttctttaag

upper sequence: LOC_Os06g46450.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G483889_T01 (Zea mays), 5'ss of exon 10
GGTTTAGCCTTCCAGTTGATCGACGATGTTCTTGATTTCACAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacagccatcccaattttcctattatattttatcttagcaacttaatatccatttaacctccaacaaacatagaattaagagctcaacaattatt
||| ||||||||||||| || || ||||| ||| ||||||||||||| ||||||||||||||||| ||||||||  || |||| || ||||| | || | | | |  || |||   ||| |||||   ||| |||                                                       
GGTCTAGCCTTCCAGTTAATTGATGATGTACTTAATTTCACAGGCACCTCTGCATCCCTTGGGAACGGTTCATTGTCTCATATTCGCCATgtgagaataacaa-cttaactttttcattctattt--actttgcag------------------------------------------------------

upper sequence: LOC_Os06g46450.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA05G21570.1 (Glycine max), 5'ss of exon 10
GGTTTAGCCTTCCAGTTGATCGACGATGTTCTTGATTTCACAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacagccatcccaattttcctattatattttatcttagc---aacttaatatccatttaacctccaacaaacatagaattaagagctcaacaattatt---
||||| || || || ||||| || ||||| ||||||||||||||||| || || |||||||| |||||||| ||| | || || |||||||||||  ||   ||    ||| |  | ||| |||| |||    |   |  || || | || |||   |     ||| ||     | | |||  |  ||  ||    
GGTTTGGCATTTCAATTGATAGATGATGTGCTTGATTTCACAGGCACATCAGCTTCCCTTGGAAAGGGTTCTTTATCAGACATTCGTCATgtaatttca-taattt--attcttattttaaatttcatccactcttgattttgatgttcagttatgattt---aaatattttgatgaaagcctatgaaacatgaat

upper sequence: LOC_Os06g46450.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA17G18160.2 (Glycine max), 5'ss of exon 10
GGTTTAGCCTTCCAGTTGATCGACGATGTTCTTGATTTCACAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacagccatcccaattttcctattatattttatcttagc---aacttaatatccatttaacctccaacaaacatagaattaagagctcaacaattatt---
||||| || || || ||||| || ||||||||||||||||||||||| || || |||||||| |||||||| ||| | || || |||||||||||  ||   ||    ||| |  | ||| |||| |||    |   |  || || | || |||   |     ||| ||     | | |||  |  ||  ||    
GGTTTGGCATTTCAATTGATAGATGATGTTCTTGATTTCACAGGCACATCAGCTTCCCTTGGAAAGGGTTCTTTATCAGACATTCGTCATgtaatttca-taat--tgattcttattttaaatttcatccactcttgattttgattttcagttatgattt---aaatattttgatgaaagcctatgaaacatgaat

upper sequence: LOC_Os06g46450.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv06s0009g03090.t01 (Vitis vinifera), 5'ss of exon 2
GGTTTAGCCTTCCAGTTGATCGACGATGTTCTTGATTTCACAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacagccatcccaattttcctattatattttatcttagcaacttaatatccatttaacctccaacaaa-catagaattaagagctcaacaattatt----------
|| || || ||||| || || || || || ||||||||||||||||| || || ||||| ||||||||||||||  |||| |||||  |||||||           |  |||| || | || | | || |||       ||  |    || | ||  || |   ||| |||  ||      ||   |  |           
GGATTGGCATTCCAATTAATAGATGACGTCCTTGATTTCACAGGCACATCAGCTTCCCTGGGGAAGGGTTCATTGTCTGACATCCGCAATgtaat-----------ccttttttctttgatgtataatgttaatgtagaaaagttttcttgagcttgaaaagttcattgaagcaaagatataaatgtggtagacagaagtg

upper sequence: LOC_Os06g46450.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv15s0024g00850.t01 (Vitis vinifera), 5'ss of exon 10
GGTTTAGCCTTCCAGTTGATCGACGATGTTCTTGATTTCACAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacagccatcccaattttcctattatattttatcttagcaacttaatatccatttaacctccaacaaa-catagaattaagagctcaacaattatt----------
|| || || ||||| || || || || || ||||||||||||||||| || || ||||| ||||||||||||||  |||| ||||| ||||||||           |  | || || | || | | ||||||       ||  |    || | ||  || |   ||| |||  ||      ||   |  |           
GGATTGGCATTCCAATTAATAGATGACGTCCTTGATTTCACAGGCACATCAGCTTCCCTGGGGAAGGGTTCATTGTCTGACATCCGCCATgtaat-----------ccttctttctttaatgtataatcttaatgtagaaaagttttcttgagcttgaaaagttcattgaagcaaagatataaatgtggtagacagaagtg

upper sequence: LOC_Os06g46450.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv00s0283g00050.t01 (Vitis vinifera), 5'ss of exon 2
GGTTTAGCCTTCCAGTTGATCGACGATGTTCTTGATTTCACAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacagccatcccaattttcctattatattttatcttagcaacttaatatccatttaacctccaacaaa-catagaattaagagctcaacaattatt----------
|| || || ||||| || || || || || ||||||||||||||||| || || ||||| ||||||||||||||  |||| |||||  |||||||           |  | || || | || | | || |||       ||  |    || | ||  || |   ||| |||  ||      ||   |  |           
GGATTGGCATTCCAATTAATAGATGACGTCCTTGATTTCACAGGCACATCAGCTTCCCTGGGGAAGGGTTCATTGTCTGACATCCGCAATgtaat-----------ccttctttctttgatgtataatgttaatgtagaaaagttttcttgagcttgaaaagttcattgaagcaaagatataaatgtggtagacagaagtg

upper sequence: LOC_Os06g46450.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv03s0132g00010.t01 (Vitis vinifera), 5'ss of exon 2
GGTTTAGCCTTCCAGTTGATCGACGATGTTCTTGATTTCACAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacagccatcccaattttcctattatattttatcttagcaacttaatatccatttaacctccaacaaa-catagaattaagagctcaacaattatt----------
|| || || ||||| || || ||  | || ||||||||||||||||| || || ||||| ||||||||||||||  |||| |||||| |||||||           |  | || || | || | | || |||       ||  |    || | ||  || |   ||| |||  ||      ||   |  |           
GGATTGGCATTCCAATTAATAGATAACGTCCTTGATTTCACAGGCACATCAGCTTCCCTGGGGAAGGGTTCATTGTCTGACATCCGTAATgtaat-----------ccttctttctttgatgtataatgttaatgtagaaaagttttcttgagcttgaaaagttcattgaagcaaagatataaatgtggtagacagaagtg

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|88844839|gb|CI022193.1|CI022193
EST:     TGGGAAGGGTTCATTAACTGATATCCGTCAT                         GGAATCATTACCGCACCTATGCTTTATGCGATGGAAGAATTCCCACAACTA
genomic: TGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacag ... cataatgcagGGAATCATTACCGCACCTATGCTTTATGCGATGGAAGAATTCCCACAACTA
EST: gi|29683022|gb|CB679297.1|CB679297
EST:     CAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCAT                         GGAATCATTACCGCACCTATGCTTTATGCGATGGAAGAATTCCCACAACTA
genomic: CAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacag ... cataatgcagGGAATCATTACCGCACCTATGCTTTATGCGATGGAAGAATTCCCACAACTA
EST: gi|88844849|gb|CI022203.1|CI022203
EST:     CAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCAT                         GGAATCATTACCGCACCTATGCTTTATGCGATGGAAGAATTCCCACAACTA
genomic: CAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacag ... cataatgcagGGAATCATTACCGCACCTATGCTTTATGCGATGGAAGAATTCCCACAACTA
EST: gi|24468700|gb|CA305649.1|CA305649
EST:     CAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCAT                         GGAATCATTACCGCACCTATGCTTTATGCGATGGAAGAATTCCCACAACTA
genomic: CAGGCACTTCTGCATCCCTTGGGAAGGGTTCATTAACTGATATCCGTCATgtaataacag ... cataatgcagGGAATCATTACCGCACCTATGCTTTATGCGATGGAAGAATTCCCACAACTA