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

AGTGCTCCTTCGACGTTGTCTGGACAGCAAGGAGGGTCTTGAGACATACCCTGATATTGGTCATGCCGCCTTTGGCACCACTGGACGTATAGCAATCTCGgtaaaatctcttgtagatgatgatatttcaactgtatgcttcaggttatgcaaaaatgactgctcttgtgctaaccctttttccttgtatgtggctccactatctacag

Basic information

species Oryza sativa
transcript LOC_Os02g01100.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g01100.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G105192_T03 (Zea mays), 5'ss of exon 3
AGTGCTCCTTCGACGTTGTCTGGACAGCAAGGAGGGTCTTGAGACATACCCTGATATTGGTCATGCCGCCTTTGGCACCACTGGACGTATAGCAATCTCGgta------aaatc-----tcttgtagatgatgatat---ttcaa---ctgtatgcttcaggt----tatgcaaaaatgactgctcttgtgctaac---cctttttccttgtatgtggctccactatctacag
 |||||||| || || || ||||||||||||||||| |||||||||||||| |||||||||||||||||||||||  |||| || |||||||| ||||| |||      |||||     || | || || |  |      |||||   ||| |   ||    |    | || |   | || |||| |||| |||||   ||||||||||||| ||||| | | || | | |||
TGTGCTCCTGCGCCGCTGCCTGGACAGCAAGGAGGGCCTTGAGACATACCCAGATATTGGTCATGCCGCCTTTGGAGCCACCGGCCGTATAGCCATCTCAgtatggttcaaatcattaatcctataaataacaactgccattcaatttctgcacattttcaatatgatgtgaatggaggaatgcttttgtactaacttacctttttccttgtttgtggtttccctgt-tgcag

upper sequence: LOC_Os02g01100.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G134888_T01 (Zea mays), 5'ss of exon 3
AGTGCTCCTTCGACGTTGTCTGGACAGCAAGGAGGGTCTTGAGACATACCCTGATATTGGTCATGCCGCCTTTGGCACCACTGGACGTATAGCAATCTCGgtaaaatctcttgtagatgatgatat----ttcaactgtatgcttcaggttatgcaaaaatgactgctcttgtgctaac--cctttttccttgtatgtggctccactatctacag
 |||||||| || | ||| ||||||||||||||||| ||  |||||||||| |||||||| ||||| |||||||||| ||| || || ||||  ||||||||||| |||  |  |||| ||||||     || ||| ||  | ||    || |||  |         || |||||| ||  |  | |||||||| ||||||| | || |  |   
TGTGCTCCTGCGCCATTGCCTGGACAGCAAGGAGGGCCTCAAGACATACCCAGATATTGGCCATGCAGCCTTTGGCAGCACAGGCCGCATAGTTATCTCGgtaaa-tctgcttcagattatgatagcgaatttaaccgtgcgttttgttttctgcgca---------tcatgtgctgactactctgttccttgtttgtggcttcgctgttgaag-

upper sequence: LOC_Os02g01100.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA10G15130.1 (Glycine max), 5'ss of exon 1
AGTGCTCCTTCGACGTTGTCTGGACAGCAAGGAGGGTCTTGAGACATACCCTGATATTGGTCATGCCGCCTTTGGCACCACTGGACGTATAGCAATCTCGgtaa----------aatctc-----ttgtagatgatgatatttcaactgta--tgcttca--ggttatgcaaaaatgactgctcttgtgctaaccctttttccttgtatgtggctccactatctacag
  ||||| | ||    ||  |||| ||      ||||||||||||||||||||| ||||| || || || ||||| || ||||||||| |    ||||||||||          ||| ||     || |   |||  ||  || || | |   | |||||  |||||     |||  | |  |||    ||     | |||     | |     |    |   | |||
GTTGCTCTTGCGTTACTGCTTGGATAGTGCACCGGGTCTTGAGACATACCCTGACATTGGCCAAGCAGCTTTTGGTACTACTGGACGTGTCATCATCTCGgtaattcttgctcaaatatccttaattttgtttgaatatgctttaatttttctttcttcaacggttaatttcaaagcattagtctctaactggtattgtttttcaattttctctttttgtggatgcag

upper sequence: LOC_Os02g01100.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA20G32260.1 (Glycine max), 5'ss of exon 4
AGTGCTCCTTCGACGTTGTCTGGACAGCAAGGAGGGTCTTGAGACATACCCTGATATTGGTCATGCCGCCTTTGGCACCACTGGACGTATAGCAATCTCGgtaaaatctcttgtagatgatgatatttcaactgtatgcttcaggt--tatgcaaaaatgac-tgctcttgtgctaaccctttttccttgtatgtggctccactatctacag
  ||||  | ||    ||  |||||||  |    |  ||||||||||||||||||||||| || || || ||||| || ||||||||||| || || || ||||    || ||  |||    |  | | |  || |   | || ||  ||| |     | || ||   |  ||  || |   | |  |   || |  |              
GCTGCTTTTGCGTTCCTGCTTGGACAGTGAACCTGAGCTTGAGACATACCCTGATATTGGCCAAGCTGCTTTTGGTACTACTGGACGTATTGCCATTTCAgtaagtcatcatgctgatctctac-tcttatttgaagtgtccatgtcctatccgtttctcacatgtattcatgtcaaacacatgtattaaaatatcacaat-----------

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|88574161|gb|CI665930.1|CI665930
EST:     CTGATATTGGTCATGCCGCCTTTGGCACCACTGGACGTATAGCAATCTCG                         ATAATCCTGTACATCGAACTGTAT
genomic: CTGATATTGGTCATGCCGCCTTTGGCACCACTGGACGTATAGCAATCTCGgtaaaatctc ... ctatctacagATAATCCTGTACATCGAACTGTAT
EST: gi|88327908|gb|CI648307.1|CI648307
EST:     CTGATATTGGTCATGCCGCCTTTGGCACCACTGGACGTATAGCAATCTCG                         ATAATCCTGTACATCGAACTGTAT
genomic: CTGATATTGGTCATGCCGCCTTTGGCACCACTGGACGTATAGCAATCTCGgtaaaatctc ... ctatctacagATAATCCTGTACATCGAACTGTAT