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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGAGAAAATGCTTATTGCCATGGTTGAGACTGAATTGGAGAAGAGAAAAGCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatgaattgttgcattttccaaaaaaataattccatctctaatgctgttgctgtgtaattttgcag

Basic information

species Oryza sativa
transcript LOC_Os06g13810.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G143862_T01 (Zea mays), 5'ss of exon 4
CAGAGAAAATGCTTATTGCCATGGTTGAGACTGAATTGGAGAAGAGAAAAGCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatgaattgttgcattttccaaa----aaaataattccatctctaatgctgttgctgtgtaattttgcag--------------------------------------------------------------------------------------------------------------------
| |||||||||||||||  |||||| || |||||| ||||||||||||||||||||||||  ||| | |||||||||||||| ||| |||| ||||||||||| |  |   || ||  |||||   ||      ||||| |   |   ||    |    ||| | |      |                                                                                                                      
CTGAGAAAATGCTTATTAGCATGGTGGAAACTGAACTGGAGAAGAGAAAAGCTGAGGGGAGATACTCTGCACATTTCAGAGGACAAGCTCATTTCTTTGGgtaagcgttttttttttaattttgtgaactgagcaataacttggttggtagacttcccactgaggaggccacccctgagaattagtttcagggagttccctggccagctagggttttgggtactccacttttttaatacaaagccatgaaatgtcatctccaactctctcatgtagcttttgttattgcag

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 11
CAGAGAAAATGCTTATTGCCATGGTTGAGACTGAATTGGAGAAGAGAAAAGCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatgaattgttgcattttccaaa----aaaataattccatctctaatgctgttgctgtgtaattttgcag--------------------------
| ||||||||||| |||  |||||| || |||||| ||||||||||||| || |||||||  ||| | |||||||||||||| ||| |||| ||||||||||| | || |||| |||||||||   ||      |||||||   |   || |  |    ||| | |      |                            
CCGAGAAAATGCTCATTAGCATGGTGGAAACTGAACTGGAGAAGAGAAAGGCAGAGGGGAGATACTCTGCACATTTCAGAGGGCAAGCTCATTTCTTTGGgtaagcattaatttttgcattttgtgaactgagcaataatttggttggtagt-ttcccactgaggaggccacccctgagaattggtttcagggagtttcct

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 11
CAGAGAAAATGCTTATTGCCATGGTTGAGACTGAATTGGAGAAGAGAAAAGCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgta-tgtatg-aattgttgcatt-ttccaaaaaaataattcc--atctctaatgctgttgctgtgtaa--ttttgcag------------------------------------------------------------------------------------------------------------------------
|||||||||||||||||   |||||||| ||||| ||||||||||||||    || || || |||   |   | || | ||| ||||| ||||| |||||||| | |||  |||| |   ||| ||    || | ||| | |  |    || ||||||   |    ||   ||| |||                                                                                                                        
CAGAGAAAATGCTTATTCAAATGGTTGAAACTGAGTTGGAGAAGAGAAAGCAAGAAGGCAAATACAATGGCGAATTTAAAGGGCAATCCCACTTTTTTGGgtaatttatctaattttgatattattattgaatagtaaattctaaaacatattgctgtgaatcaaaaaatctttccagggacatgctttttcttctcctttacttggatttaaatttctctcaatcatacatgttatgtgtgatcttttaaatgacttaatatgttagagtttgtactgactcatttaaaatatgcag

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA09G01050.1 (Glycine max), 5'ss of exon 11
CAGAGAAAATGCTTATTGCCATGGTTGAGACTGAATTGGAGAAGAGAAAAGCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgta--tgaattgttgcatt-ttccaaaaaaataattcc--atctctaatgctgttgct--gtgtaattttgcag--------------------------------------------------------------------------------------------------------------------------
|||||||||||||||||   |||||||| ||||| ||||||||||||||    || || || |||   |   | || | ||| ||||| |||||||| |||||| |     |||| |   ||| ||    || | ||| | |  ||   || ||||||   |      || ||| |||                                                                                                                          
CAGAGAAAATGCTTATTCAAATGGTTGAAACTGAGTTGGAGAAGAGAAAGCAAGAAGGCAAATACAAAGGCGAATTTAAAGGGCAATCCCACTTCTTCGGgtattttatctaattttgatattattattgaatagtaaattctaatacatattgctgtgaatcaaaaaaactttccagggacaatttttattctcctttacttggattaaagtttctctcgatcatacatgttatgtgtgatctttcaaatgagtttatatgttagagtttgtagttactgactcatttaaaatatgcag

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA17G01360.1 (Glycine max), 5'ss of exon 9
CAGAGAAAATGCTTATTGCCATGGTTGAGACTGAATTGGAGAAGAGAAAAGCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgta-tgtatgaattgt---tgcattttccaaaaaaataattccatctctaatgctg-ttgctgtgtaattttgcag------------------------
|||||||||||||||||   |||||||| ||||| ||||||||||||||     ||||    ||    |     || || || || || ||||| || ||||| |   |  ||| |   |  |   | |    |  |  |   ||   ||||  |  ||||| ||  |      |                         
CAGAGAAAATGCTTATTCAAATGGTTGAAACTGAGTTGGAGAAGAGAAAGCAACAGGGCTCATATAAAGGCGGATTTAGGGGGCAGTCCCACTTTTTCGGgtactccgtctattttagatataccgttcttggagttgctaggattgataatattaattgctatgagacagaaaaatatgaagaggtcctatggtcctgc

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA07G39380.2 (Glycine max), 5'ss of exon 11
CAGAGAAAATGCTTATTGCCATGGTTGAGACTGAATTGGAGAAGAGAAAAGCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgta-tgtatgaattgt---tgcattttccaaaaaaataattccatctctaatgctgtt-gctgtgtaattttgcag------------------------
|||||||||||||||||   |||||||| ||||| ||||||||||||||     |||| |  ||    | |   || || || || || ||||| || ||||| |   |  ||| |   |  ||  | |    |  |       |   ||||    || ||| ||  |      |                         
CAGAGAAAATGCTTATTCAAATGGTTGAAACTGAGTTGGAGAAGAGAAAGCAACAGGGCACATATAAAGGAGGATTTAGGGGGCAGTCCCACTTTTTCGGgtactccgtctattttagatatatcattcttggagttgtaaggtttgataatatgatttgctatgagacagaaaaatatgaaaaggtcctatggtcctgc

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|29689204|gb|CB685479.1|CB685479
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|88247475|gb|CI247324.1|CI247324
EST:     GGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAATTATTGCTA
genomic: GGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|88365473|gb|CI680112.1|CI680112
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTG
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTG
EST: gi|29678699|gb|CB674974.1|CB674974
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|29632620|gb|CB637629.1|CB637629
EST:     CATTTCAGAGGCCAATCTCACTTCTTTGA                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: CATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|88369740|gb|CI680411.1|CI680411
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATNGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|88581492|gb|CI698483.1|CI698483
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAA
EST: gi|58687019|gb|CK075706.1|CK075706
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|29689205|gb|CB685480.1|CB685480
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|58684244|gb|CK072931.1|CK072931
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|55431802|gb|CV728921.1|CV728921
EST:     AGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: AGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|33687066|gb|CF315305.1|CF315305
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|58672321|gb|CK061007.1|CK061007
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|428916|gb|D25072.1|D25072
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|8527563|gb|AU092378.1|AU092378
EST:     GCTGAGGGGAAGTACCCCGCNCATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|88578785|gb|CI687736.1|CI687736
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|88197484|gb|CI197186.1|CI197186
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|86854109|gb|CI252100.1|CI252100
EST:     CACATTTCAGAGNCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
genomic: CACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTTTGATTCTAACTATTGCTA
EST: gi|2312262|gb|C28417.1|C28417
EST:     GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGG                         ATATGAAGGAAGATGTGGCCTTCCTACTATTTT
genomic: GCTGAGGGGAAGTACCCCGCACATTTCAGAGGCCAATCTCACTTCTTTGGgtatgtatga ... aattttgcagATATGAAGGAAGATGTGGCCTTCCTACTATTTT