Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAGgtatgctgtatagttgtattgatttcgtagtaggatgagttttatttggtcaggtttcggtttctggtttgcctggaagagtttatttctgatggctgctttcatttttctatgtgtag

Basic information

species Oryza sativa
transcript LOC_Os08g42410.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G043198_T03 (Zea mays), 5'ss of exon 9
CTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAGgtatgctgtatagttgtattgatttcgtagtaggatgagttttatttggtcaggtttcggtttctggtttgcctggaagagtttatttctgatggctgctttcatttttctatgtgtag
 |||||||||||||| ||||| ||||| || || ||||||||||||||||| ||||||||||| |||||||||||||| | |     | ||| ||||         || |||||  | ||| ||||| |||  ||  ||| ||| ||| ||   ||| ||| ||   |  |                     
TTATGGTGAATCATTTCCTGTATCTGCTGAGGTACTTGATTCTAGCTTCTGCCTTCCGATTGGAAAGGCTAAGgtatgttct-----tatatcgattaatggaagtgaagagttcaaattgatcaggcttcccttgatggattgtctgcaaatctttttttatggatgtag---------------------

upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA02G46380.1 (Glycine max), 5'ss of exon 9
CTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAGgtatgctgtatagttgtattgatttcgtagtaggatgagttttatttggtcaggtttcggtttctggtttgcctggaagagtttatttct-gatggctgctttcatttttcta-tgtgtag
 |||||||| |||||||||||||| || |||||||||||||| || || || ||||| || || || || |||||| |     ||  |||| |   ||          |  | ||| |   | ||  |||    | |    |            || | |||| | | ||| | | |||||| | | |    ||
ATATGGTGAGTCATTCCCTGTTTCGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAGgta-gtcaattatctgtagtatattaaataccccttatgatttttggagccatattt--actacacaataatacattcttattgacttcttgtttgcttcatgcattttacgactaaacag

upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA14G02380.2 (Glycine max), 5'ss of exon 9
CTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAGgtatgctgtatagttgtattgatttcgtagtaggatgagttttatttggtcaggtttcggtttctggtttgcctggaagagtttatttct-gatggctgctttcatttttcta-tgtgtag
 |||||||| |||||||||||||| || |||||||||||||| || || || ||||| || || || || |||||| | |   ||  ||||   || |   |      | |  ||| |   | ||  |||    | |    |            || |||||| | | ||| | | |||||| | | |    ||
ATATGGTGAGTCATTCCCTGTTTCGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAGgta-gttaattatctgtagc-atattaaataccccttatatttttggagccatattt--actacacaataatacattcttattgatttcttgtttgcttcatgcattttaccactaaacag

upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA14G36540.1 (Glycine max), 5'ss of exon 9
CTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAGgtatgctgtatagttgtattgatttcgtagtaggatgagttttatttggtcaggtttcggtttctggtttgcctggaagagtttatttctgatggctgctttcatttttcta-tgtgtag
 |||||||| |||||||||||||| || |||||||||||||| || || || ||||| || || || || |||||| | |   ||  |||| |   ||          |  | ||| |   | ||  |||      |     | | |    |  |   ||  || | ||| | | |||||| | | |    ||
ATATGGTGAGTCATTCCCTGTTTCGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAGgta-gttaattatctgtagtatattaaataccccttatgatttttggagccatatttactgcacaaaaatacattcttgc-tgacttcttgtttgcttcatgcattttaccactaaacag

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|33824375|gb|CF338004.1|CF338004
EST:     CTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAG                         ATAGAGCAAGAAGGAAAAGATGTTACAATTACCGCATTCTCCAAGATGGTC
genomic: CTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAGgtatgctgta ... ctatgtgtagATAGAGCAAGAAGGAAAAGATGTTACAATTACCGCATTCTCCAAGATGGTC
EST: gi|38472326|gb|CF956457.1|CF956457
EST:     CTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAG                         ATAGAGCAAGAAGGAAAAGATGTTACAATTACCGCATTCTCCAAGATGGTC
genomic: CTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAGgtatgctgta ... ctatgtgtagATAGAGCAAGAAGGAAAAGATGTTACAATTACCGCATTCTCCAAGATGGTC
EST: gi|218484233|gb|FG953202.1|FG953202
EST:     CTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAG                         ATAGAGCAAGAAGGAAAAGATGTTACAATTACCGCATTCTCCAAGATGGTC
genomic: CTGCGGAAGTTCTTGATTCTAGCTTCTGTCTTCCGATTGGGAAGGCTAAGgtatgctgta ... ctatgtgtagATAGAGCAAGAAGGAAAAGATGTTACAATTACCGCATTCTCCAAGATGGTC