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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagataagaagagggaaactgtccttgtcactttctcgatcatccatcgcgtctactacatgtccatttagcttgggtttgcagtgactgatgatcgtttgcgtcgcagGCCGAAGGCATCACCCACACCGGTCCAACCAAGCTGGTGCTGTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCCGTCACAGT

Basic information

species Oryza sativa
transcript LOC_Os01g63770.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g63770.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G127949_T07 (Zea mays), 3'ss of exon 5
gtgagataagaagagggaaactgtccttgtcactttctcgatcatccatcgcgtctactacatgtccatt--tagcttgggtttgcagtgactgatgatcgtttgcgtcgcagGCCGAAGGCATCACCCACACCGGTCCAACCAAGCTGGTGCTGTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCCGTCACAGT
                      | ||    |||   | |   || |     ||    |||  |||| |    |   |     |  | ||       |        | | ||||||||||||| |  | ||| |||| || |||||||| ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
------------------gtgagccccccccacagccaccgccaccggatccgatcgctat-tgtctaccactgattcaccgtccccgtcgtcctcgccgacgcacat-gcagGCCGAAGGCGTGGCGCACTCCGGCCCCACCAAGCTCGTGCTCTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCCGTCACAGT

upper sequence: LOC_Os01g63770.1 (Oryza sativa), 3'ss of exon 5
lower sequence: AT5G01240.2 (Arabidopsis thaliana), 3'ss of exon 3
gtgagataagaagagggaaactgtccttgtcactttctcgatcatccatcgcgtctactacatgtccatttagcttgggtttgcagtgactgatgatcgtttgcgtcgcagGCCGAAGGCATCACCCACACCGGTCCAACCAAGCTGGTGCTGTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCCGTCACAGT
                     ||||||  |||   ||   || ||  |        |  | |   | || |  |||      |  || ||| |        ||  | | |||| || ||  | || ||  |||||||||||||||| ||| ||||||| ||||| ||||||||||||||||| |||||||| || ||||| || || ||
------------------gtatgtcctcatcaaaatca-aatgattta----aatgaagaaaaaacaatgtgacttaaaccggttgtaacttac-------tggtttgtagGCGGAGGGTGTGACACATTCCGGTCCAACCAAGCTTGTGTTGTACTTTACCGGAGCCACCAACATCCTCTATACCTTCGGTGGACACGCTGTGACCGT
















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|58661448|gb|CK050128.1|CK050128
EST:     CCACCTATACCGCTTGGTACCTCGCCATCGCCGCCCTCCTCAACGGCCAG                         GCCGAAGGCATCACCCACACCGGTCCAACCAAGCTGGTGCTGTACTTCACC
genomic: CCACCTATACCGCTTGGTACCTCGCCATCGCCGCCCTCCTCAACGGCCAGgtgagataag ... tgcgtcgcagGCCGAAGGCATCACCCACACCGGTCCAACCAAGCTGGTGCTGTACTTCACC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actacatgtccatttagcttgggtttgcagtgactgatgatcgtttgcgtcgcagGCCGAAGGCATCACCCACACCGGTCCAACCAAGCTGGTGCTGTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCCGTCACAGT
                               gactgat  putative branch site (score: 3)
           attta  TA-rich tract