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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAGGAAGATTTCACTCCTAAGGTTACTGATTTTGGTTTAGCAAGGGAGGCAACTAATGGAATTCAACCCATTTCTACTAGGGTAATGGGTACTTTTGGgtaaggcacattttgcttatatccatctgctatgatgatgtcattaattgttatttcaatggataaaagtgatacgcaatcttcattcttttgtatttgg...

Basic information

species Oryza sativa
transcript LOC_Os02g57080.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57080.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM5G871520_T01 (Zea mays), 5'ss of exon 2
TGGAGGAAGATTTCACTCCTAAGGTTACTGATTTTGGTTTAGCAAGGGAGGCAACTAATGGAATTCAACCCATTTCTACTAGGGTAATGGGTACTTTTGGgtaaggcacattttgcttatatcc-atctgctatgatgatgtcattaattgttatttcaatggataaaagtgatacgcaatcttcattcttttgtatttgg
| |||||||||||||||||||| || || |||||||||||||||||||| ||| | ||||  | |||||| || ||||| ||||||||||||||||| |||||||||||| ||||||  || || ||||  ||| | ||||||| | |   |     |  | | | |   |  |   | || ||  | ||| |  ||  | 
TAGAGGAAGATTTCACTCCTAAAGTGACCGATTTTGGTTTAGCAAGGGAAGCATCCAATGCGACTCAACCTATATCTACCAGGGTAATGGGTACTTTCGGgtaaggcacactttgctcttaccccatcttatataacgatgtcaattaccatgtgaccgttagttgatgattttttactatttttctgcttcttgatacg-

upper sequence: LOC_Os02g57080.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G102163_T01 (Zea mays), 5'ss of exon 7
TGGAGGAAGATTTCACTCCTAAGGTTACTGATTTTGGTTTAGCAAGGGAGGCAACTAATGGAATTCAACCCATTTCTACTAGGGTAATGGGTACTTTTGGgtaaggcacattttgcttatatccatctgctatgatgat-gtcattaattgttatttcaatggataaaagtgatacgcaatcttcattcttttgtatttgg
| ||||||||||||||||| || |||||||||||||||||||||||||| ||| | |||| || |||||| || ||||| ||||||||||| ||||| |||||||||||  || |||||   |    |  ||| || || |   ||    |||  | |  |  ||     || | | | ||  | || |  | ||  | | 
TAGAGGAAGATTTCACTCCCAAAGTTACTGATTTTGGTTTAGCAAGGGAAGCATCCAATGCAACTCAACCTATATCTACCAGGGTAATGGGCACTTTCGGgtaaggcacgcttcgcttactgcatcttaatataataatcggttttttaagttggtgcccttaattttgctggtgccctataataataccat-gtgatggt

upper sequence: LOC_Os02g57080.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA10G04700.1 (Glycine max), 5'ss of exon 5
TGGAGGAAGATTTCACTCCTAAGGTTACTGATTTTGGTTTAGCAAGGGAGGCAACTAATGGAATTCAACCCATTTCTACTAGGGTAATGGGTACTTTTGGgtaaggc---acattttgcttatatccatctgctatgatgatgtcattaattgttatttcaatggataaaagtgatacgcaatcttcattcttttgtatttgg-
| || || || || || || |||||| |||||||||| |||||||| || || ||  | |||| |   |  |||||||| ||||| |||||||||||||||||||     | | || |  |  | |  | || | |  | || |  || |  |||     |   | |     |||  |  |      || | | ||    ||| 
TAGAAGATGACTTTACCCCCAAGGTTTCTGATTTTGGATTAGCAAGAGAAGCGACCGAAGGAAATAGTCATATTTCTACAAGGGTCATGGGTACTTTTGGgtaagttttaagacttcgtctgcaacattttgatttagtaat-tttttgagagttccactacacgctgggtttgaatctga---cagatacatgtgagggtggg

upper sequence: LOC_Os02g57080.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA13G19030.1 (Glycine max), 5'ss of exon 6
TGGAGGAAGATTTCACTCCTAAGGTTACTGATTTTGGTTTAGCAAGGGAGGCAACTAATGGAATTCAACCCATTTCTACTAGGGTAATGGGTACTTTTGGgtaaggcacattttgcttatatccatctgctatgatgat---gtcattaattgtta-tttcaatggataaaagtgatacgcaatcttcattcttttgtatttgg--
| || || || || || || |||||| |||||||||| |||||||| || || ||| | ||||     |  |||||||| ||||| |||||||||||||||||||     ||||   | | ||  | ||  ||  ||||   || |||  |||| | || || |  ||      | |  | || ||   |    | | ||  ||  
TAGAAGATGACTTTACCCCCAAGGTTTCTGATTTTGGATTAGCAAGAGAAGCGACTGAAGGAAAGAGTCATATTTCTACAAGGGTCATGGGTACTTTTGGgtaag-----ttttaagtttgtctgtgtgacattttgatctagtaattttttgtgagttccactacatggcctgggtttg-aacctgactggcatagcatgagggg

upper sequence: LOC_Os02g57080.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv07s0005g04710.t01 (Vitis vinifera), 5'ss of exon 4
TGGAGGAAGATTTCACTCCTAAGGTTACTGATTTTGGTTTAGCAAGGGAGGCAACTAATGGAATTCAACCCATTTCTACTAGGGTAATGGGTACTTTTGGgtaaggcacattttgcttatatc--catctgctatgatgatgtcattaattgttatttcaatggataaaagtgatacgcaatcttcattcttttgtatttgg
| || || |||||||| || |||||| | |||||||| || |||||||| |||||  | |||| ||| |  || ||||||||||| ||||| ||||||||||||      ||    |||| |   ||     ||   |||  |  |  |  | | |         | | |   ||    | |  |  |  ||    | ||  
TAGAAGATGATTTCACCCCAAAGGTTTCGGATTTTGGGTTGGCAAGGGAAGCAACAGAAGGAAGTCATCATATATCTACTAGGGTCATGGGAACTTTTGGgtaattactgttcctgttatgtggacactcattagcctga-attctacacagctttccatgaaatttataaccatggttatttcttgtcattcacaaattc-

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|58666082|gb|CK054768.1|CK054768
EST:     GCAACTAATGGAATTCAACCCATTTCTACTAGGGTAATGGGTACTTTTGG                         GTACGTTGCTCCAGAATATGCCATGACCGGGCATCTTCTTGTGAAGAGTGA
genomic: GCAACTAATGGAATTCAACCCATTTCTACTAGGGTAATGGGTACTTTTGGgtaaggcaca ... gatcgaacagGTACGTTGCTCCAGAATATGCCATGACCGGGCATCTTCTTGTGAAGAGTGA
EST: gi|58685240|gb|CK073927.1|CK073927
EST:     GCAACTAATGGAATTCAACCCATTTCTACTAGGGTAATGGGTACTTTTGG                         GTACGTTGCTCCAGAATATGCCATGACCGGGCATCTTCTTGTGAAGAGTGA
genomic: GCAACTAATGGAATTCAACCCATTTCTACTAGGGTAATGGGTACTTTTGGgtaaggcaca ... gatcgaacagGTACGTTGCTCCAGAATATGCCATGACCGGGCATCTTCTTGTGAAGAGTGA
EST: gi|58599593|gb|CK010121.1|CK010121
EST:     CCATTTCTACTAGGGTAATGGGTACTTNTGG                         GTACGTTGCTCCAGAATATGCCAGGGGCGGGCATCTTCTTGTGAAGAGTGA
genomic: CCATTTCTACTAGGGTAATGGGTACTTTTGGgtaaggcaca ... gatcgaacagGTACGTTGCTCCAGAATATGCCATGACCGGGCATCTTCTTGTGAAGAGTGA