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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATAATGATTGGAAATGCCCTAATTGCAACAACATTAACTTTGCATTCCGGACAGTCTGTAACATGAGAAAGTGCAATACACCAAGACCTGAAAACCAGgtacaattctccacttcttgtacttgtgcaagttcccacctattgtattactactactaaattatgaaatatctttctttctataaatctaaaattggtc...

Basic information

species Oryza sativa
transcript LOC_Os08g41010.4
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g41010.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G134770_T04 (Zea mays), 5'ss of exon 7
TGATAATGATTGGAAATGCCCTAATTGCAACAACATTAACTTTGCATTCCGGACAGTCTGTAACATGAGAAAGTGCAATACACCAAGACCTGAAAACCAGgt-acaattctccacttcttgtacttgtgcaagttcccacctattgtattactactactaaattatgaaatatctttctttctataaatctaaaattggtc
||||||||||||| | || || |||||| ||||||| |||||||  ||||| ||||||||||| |||||||||||||| ||||| ||||||||||||||||| | |    ||  | |  | | ||  || ||||   |   ||||   ||  |     |||| |||||   || |||||||   |   |  ||   | || 
TGATAATGATTGGGAGTGTCCAAATTGCCACAACATCAACTTTGGCTTCCGCACAGTCTGTAATATGAGAAAGTGCAACACACCTAGACCTGAAAACCAGgttagagacttcttccttatctgctattgtaagtgatctggtattactttcatgtatttaaactatgatcaatgtttctttacttttgttgaactgtagt-

upper sequence: LOC_Os08g41010.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM5G868981_T01 (Zea mays), 5'ss of exon 5
TGATAATGATTGGAAATGCCCTAATTGCAACAACATTAACTTTGCATTCCGGACAGTCTGTAACATGAGAAAGTGCAATACACCAAGACCTGAAAACCAGgt--acaattctccacttcttgtacttgtgcaagttcccacctattgtattactactactaaat-tatgaaatatctttctttctataaatctaaaattggtc--
||||||||||||| | || || |||||| | ||||| |||||||  || || ||||||||||| |||||||||||||| ||||| ||||||| |||||||||   ||| |     ||  |  | ||  |  |||   | | ||    |||| || ||  ||  | | | || ||   |  ||| || ||||   || |  ||   
TGATAATGATTGGGAGTGTCCAAATTGCCATAACATCAACTTTGGCTTTCGCACAGTCTGTAATATGAGAAAGTGCAACACACCTAGACCTGCAAACCAGgtttgcaacttctgtctcatcttgctattataag---cgatctg--atattgcttcttttatgtatttaaattaagatcatttttaaaaattgtaattgtgttag

upper sequence: LOC_Os08g41010.4 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv01s0010g03700.t01 (Vitis vinifera), 5'ss of exon 7
TGATAATGATTGGAAATGCCCTAATTGCAACAACATTAACTTTGCATTCCGGACAGTCTGTAACATGAGAAAGTGCAATACACCAAGACCTGAAAACCAGgtacaattctccacttcttgtacttgtgcaagttcccacctattgtattactactactaaattatgaaatatctttctttctataaatctaaaattggtc---------------------------------------------------------------------------------
||||||||| ||||  || ||||| ||    ||  | |||||  | ||  | || || ||||||||||| |||||||||||||||| ||||| |   |||||   |  |  |  ||| | ||    || |       |    |   |||  || ||  | |  ||||||  | | || ||| |||    |    | | |                                                                                  
TGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACTTCTCTTTTAGAACTGTTTGTAACATGAGGAAGTGCAATACACCAAAACCTGGATCACAGgtttgag-cagcgtttcgtttaagaatgtagaactagat---tgtcatttttaatatcacagcatgaaagttttatcattcaatagccttttcttggatgttaaacttaaaaatctaacaatcaattggaatctttgtagtatgtttattactttctaataattctctcttgcaaatgcag

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|88671645|gb|CI725443.1|CI725443
EST:     GGACAGTCTGTAACATGAGAAAGTGCAATACACCAAGACCTGAAAACCAG                         GGGTCCAAACCTGATGGTGCAA
genomic: GGACAGTCTGTAACATGAGAAAGTGCAATACACCAAGACCTGAAAACCAGgtacaattct ... tcttatgcagGGGTCCAAACCTGATGGTGCAA
EST: gi|29680937|gb|CB677212.1|CB677212
EST:     GGACAGTCTGTAACATGAGAAAGTGCAATACACCAAGACCTGAAAACCAG                         GGGTCCAAACCTGATGGTGCAAGAGGTCCAA
genomic: GGACAGTCTGTAACATGAGAAAGTGCAATACACCAAGACCTGAAAACCAGgtacaattct ... tcttatgcagGGGTCCAAACCTGATGGTGCAAGAGGTCCAA