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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGAGACGGAGGTGCAGGAGGCCAAGGGCACGCTCGATGCCAAGCTCGTGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaaaagtggaatgcttagatttcgtgactattgatcattagcacagtttttggtctgttaagtttgttagatttgcaggtttcccggcacttg...

Basic information

species Oryza sativa
transcript LOC_Os01g37837.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G172101_T01 (Zea mays), 5'ss of exon 3
CAAGGAGACGGAGGTGCAGGAGGCCAAGGGCACGCTCGATGCCAAGCTCGTGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaaaagtgga---atgcttagatttcgtgactattgatcattagcacagtttttggtctgttaagtttgttagatttgcaggtttcccggcacttg
||| ||    |||||||||||||||||| |||| ||||| |||||||||  ||||||||| ||||| |||||||| ||||| || |||||||| |||||||||   || ||| |       |||||    |   |   |  |   || |     |  | || |  |||  | | ||  ||  |  |   |  | |  |  |  
CAAAGAAGTTGAGGTGCAGGAGGCCAAGAGCACCCTCGACGCCAAGCTCACGACGATTGGGAACATCGTGCATGAGTCCGTGCCAGTCAGCGAAGACGAGgtgatctggaaatttagttggtgcttgttctggctatttcctttccactgaagtaactgttagattgt--aatgtggcagcctaactattagctccactgtc-

upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G124439_T01 (Zea mays), 5'ss of exon 3
CAAGGAGACGGAGGTGCAGGAGGCCAAGGGCACGCTCGATGCCAAGCTCGTGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaaaagtggaatgcttagatttcgtgactattgatcattagcacagtttttggtctgttaagtttgttagatttgcaggtttcccggcacttg-
||| ||    |||||| ||||||||||| |||| ||||| |||||| ||  ||||||||| ||||| |||||||| ||||| || |||||| | |||||||||   || ||| |    || |    | |  || |||||     |   |  |  |    ||  | |     ||| | ||    |   ||  | |||||   
CAAAGAAGTTGAGGTGTAGGAGGCCAAGAGCACCCTCGACGCCAAGGTCACGACGATTGGCAACATCGTGCATGAGTCCGTGCCAGTCAGCAACGACGAGgtgacctggaaatttagttggt-gtttgttctggctatttgctttccactgaagtaactgttagattgtagtgtgacatcctaaatattagctgcactgtc

upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G355297_T01 (Zea mays), 5'ss of exon 3
CAAGGAGACGGAGGTGCAGGAGGCCAAGGGCACGCTCGATGCCAAGCTCGTGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaaaagtgga---atgcttagatttcgtgactattgatcattagcacagtttttggtctgttaagtttgttagatttgcaggtttcccggcacttg
||| ||    |||||||||||||||||| |||| ||||| |||||| ||  ||||||||| ||||| |||||||| || || || ||||||||||||||||||   |  ||| |       || ||    |   |   |  |   ||||     |  | || | ||||  ||| ||  |   |      |  | |  |  |  
CAAAGAAGTTGAGGTGCAGGAGGCCAAGAGCACCCTCGACGCCAAGGTCACGACGATTGGCAACATCGTGCATGAGTCTGTGCCAGTCAGCGATGACGAGgtgacctagaaatttagttggtgtttgttctggctatttgctttccattgaagtaactgttagactgt--agtgtgacatcctaaatattagctccactgtc-

upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G461189_T01 (Zea mays), 5'ss of exon 2
CAAGGAGACGGAGGTGCAGGAGGCCAAGGGCACGCTCGATGCCAAGCTCGTGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaaaagtgga---atgcttagatttcgtgactattgatcattagcacagtttttggtctgttaagtttgttagatttgcaggtttcccggcacttg
||| ||    |||||||||||||||||| |||| ||||| |||||| || |||||||| | ||||| ||| |||| ||  | ||  |||| || |||||||||   || ||| |       || ||    |   |   |  |   || |     |  | || | ||||  ||| ||  |   |      |  | |  |  |  
CAAAGAAGTTGAGGTGCAGGAGGCCAAGAGCACCCTCGACGCCAAGGTCATGACGATTTGCAACATCGTGTATGAGTCTATGCCATTCAGTGACGACGAGgtgacctggaaatttagttggtgtttgttctagctatttgctttccactgaagtaactgttagactgt--agtgtgacatcctaaatattagctccactgtc-

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|29633861|gb|CB638870.1|CB638870
EST:     TGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAG                         GCTAACAATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAAT
genomic: TGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaa ... ttctttgtagGCTAACAATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAAT
EST: gi|33796179|gb|CF323955.1|CF323955
EST:     TGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAG                         GCTAACAATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAAT
genomic: TGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaa ... ttctttgtagGCTAACAATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAAT