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'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctccgatacctatggtagtttttatgccagcaatttttttacaagaatattcaaaatggaatttatttattaatgatctgtttcttgattatcatgcagAGTTGTTCACACACTTAGCCATAATTTTCGCGATGCTACAAGACTTGAACGTGTGCGCTTGAGATTGCCGGTTGAACCACACAATGCTCTGGTCAAAATA

Basic information

species Oryza sativa
transcript LOC_Os09g28570.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g28570.3 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G368058_T01 (Zea mays), 3'ss of exon 2
cctccgatacctatggtagtttttatgccagcaatttttttacaagaatattcaaaatgga----atttatttattaatgatctgtttct-tgattatcatgcagAGTTGTTCACACACTTAGCCATAATTTTCGCGATGCTACAAGACTTGAACGTGTGCGCTTGAGATTGCCGGTTGAACCACACAATGCTCTGGTCAAAATA
      | ||| || |  | |    | |    | | | |    ||  ||||||  |||||     ||    | |||  | |  | | | | || |  |  || || |||||||||||||| |||||||| || ||  |||||||||| ||||| ||||||||| ||||||| ||  ||||||| |||||  |||| || ||||| 
----gtacaccaatagctggtccatttct--tagtatctagggaactatattcctaatggccaacatcctatcatttcttacatatctttatggtgcttttgtagGGTTGTTCACACACTCAGCCATAACTTCCGGAATGCTACAAGGCTTGAGCGTGTGCGCCTGAGATTACCCATTGAACCGCACAACACTCTAGTTAAAATT

upper sequence: LOC_Os09g28570.3 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G147191_T02 (Zea mays), 3'ss of exon 7
cctccgatacctatggtagtttttatgccagcaatttttttacaagaatattcaaaatggaatttattt-attaatgatc--tgtttcttgattatcatgcagAGTTGTTCACACACTTAGCCATAATTTTCGCGATGCTACAAGACTTGAACGTGTGCGCTTGAGATTGCCGGTTGAACCACACAATGCTCTGGTCAAAATA
 | | |      || |||  |   ||||  | |||||| |  || |  |||||||||| | |||| ||| ||||||||||  |  || || ||  |  || ||||||||||||||||| ||||||||||||||| |||||||||||||||| |||||||   ||||||| ||  |  || | || | ||||||||| ||||||
accctgtcggtaattgtatctcacatgctggaaattttgt-gcagg--tattcaaaattgcatttgttttattaatgatcgtttcttttttatgcttgtgtagAGTTGTTCACACACTCAGCCATAATTTTCGCAATGCTACAAGACTTGAGCGTGTGCAACTGAGATTTCCTATCAAAGCGCATAGTGCTCTGGTTAAAATA
















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|287167|gb|D15972.1|D15972
EST:     ACACAAAATACCTTTTCGACTGTCCAAACTCCTGAGTTCTATGAGAAGAT                         AGTTGTTCACACACTTAGCCATAATTTTCGCGATGCTACAAGACTTGAACG
genomic: ACACAAAATACCTTTTCGACTGTCCAAACTCCTGAGTTCTATGAGAAGATgtaagtagtc ... tatcatgcagAGTTGTTCACACACTTAGCCATAATTTTCGCGATGCTACAAGACTTGAACG
EST: gi|88405965|gb|CI591360.1|CI591360
EST:     TGAGTTCTATGAGAAGAT                         AGTTGTTCACACACTTAGCCATAATTTTCGCGATGCTACAAGACTTGAACG
genomic: TGAGTTCTATGAGAAGATgtaagtagtc ... tatcatgcagAGTTGTTCACACACTTAGCCATAATTTTCGCGATGCTACAAGACTTGAACG
EST: gi|58688798|gb|CK077485.1|CK077485
EST:     ACACAAAATACCTTTTCGACTGTCCAAACTCCTGAGTTCTATGAGAAGAT                         AGTTGTTCACACACTTAGCCATAATTTTCGCGATGCTACAAGACTTGAACG
genomic: ACACAAAATACCTTTTCGACTGTCCAAACTCCTGAGTTCTATGAGAAGATgtaagtagtc ... tatcatgcagAGTTGTTCACACACTTAGCCATAATTTTCGCGATGCTACAAGACTTGAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatattcaaaatggaatttatttattaatgatctgtttcttgattatcatgcagAGTTGTTCACACACTTAGCCATAATTTTCGCGATGCTACAAGACTTGAACGTGTGCGCTTGAGATTGCCGGTTGAACCACACAATGCTCTGGTCAAAATA
     ttcaaaatggaattta  TA-rich tract