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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcggtaatactaatactactgctactgctactgctactcattactcatctcaatcacactcttctccattcgtttcagGCCTAGTCTCCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTTTCTCCTTGTTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTA

Basic information

species Oryza sativa
transcript LOC_Os02g58580.4
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g58580.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G017365_T08 (Zea mays), 3'ss of exon 1
--------------------gtcggtaatactaatactactgctactgctactgctactcattactcatctcaat-cacactcttctccattcgttt-cagGCCTAGTCTCCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTTTCTCCTTGTTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTA
                     |||||  ||    |   | |  | |||||      |      | |||   || | |  ||   |  || ||  ||| ||||| |||| || ||||||||||||||||||||||| || ||  |  | |||||||| |||||||| |||||||| ||| ||||||| |||||| |||||||
attgcatcctacatctactactcggtc-tatctgtttcatttatgctgctggatggaagaggaattcagagcagtgcttacaggtgccctttgttttgcagGCTTAGTTTCAGATGCTTTCCATCTCACCTTTGGATGCGGCTTGTTAACTTTCTCATTGTTTGCTATGGCTGCATCCCGAACCAAGCCTGATAACCTCTA

upper sequence: LOC_Os02g58580.1 (Oryza sativa), 3'ss of exon 1
lower sequence: EFJ17851 (Selaginella moellendorffii), 3'ss of exon 1
gtcggtaatactaatactactgctactgctactgctactcattactcatc-tcaatcacactcttctccattcgtttcagGCCTAGTCTCCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTTTCTCCTTGTTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTA
                  |           |  |  |    ||    ||  | ||||   || |  |    || ||||||| || || || ||||||||||||||||| || || ||||| || |||||||||||||||||||| ||||      |||     ||| ||||  ||   ||
---------------gtaagcatagaaaagagagaaaagagtttgagatgatgaatctttctttgttttcctc-tttcagGTCTTGTGTCGGATGCTTTCCATCTCACTTTCGGCTGTGGGATGCTCACTTTCTCCTTGTTTGCGATGGTCATGGCCAAGCGGAAAGCTGACGACGATTA

upper sequence: LOC_Os02g58580.1 (Oryza sativa), 3'ss of exon 1
lower sequence: EFJ16386 (Selaginella moellendorffii), 3'ss of exon 1
gtcggtaatactaatactactgctactgctactgctactcattactcatctcaatcacactcttctccattcgtttcagGCCTAGTCTCCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTTTCTCCTTGTTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTA
        ||   |||  |  |  |        | |    || |      | ||||   || |  |    || ||||||| || || || ||||||||||||||||| || || ||||| || |||||||||||||||||||| ||||      |||     ||| ||||  ||   ||
-------gtaagcatagaaaagagagaaaagaagtttgagatga------tgaatctttctttgttttcctc-tttcagGTCTTGTGTCGGATGCTTTCCATCTCACTTTCGGCTGTGGGATGCTCACTTTCTCCTTGTTTGCGATGGTCATGGCCAAGCGGAAAGCTGACGACGATTA

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|29661173|gb|CB657448.1|CB657448
EST:     CGCCTACTCCGCCACCGAGCTCGCCATCGGCCTCCTCACTGCCCGCGTAG                         GCCTAGTCTCCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTT
genomic: CGCCTACTCCGCCACCGAGCTCGCCATCGGCCTCCTCACTGCCCGCGTAGgtcggtaata ... ttcgtttcagGCCTAGTCTCCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTT
EST: gi|29656007|gb|CB652282.1|CB652282
EST:     CGCCTACTCCGCCACCGAGCTCGCCATCGGCCTCCTCACTGCCCGCGTAG                         GCCTAGTCTCCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTT
genomic: CGCCTACTCCGCCACCGAGCTCGCCATCGGCCTCCTCACTGCCCGCGTAGgtcggtaata ... ttcgtttcagGCCTAGTCTCCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgctactgctactcattactcatctcaatcacactcttctccattcgtttcagGCCTAGTCTCCGATGCTTTCCATCTCACCTTTGGTTGTGGAATCCTCACTTTCTCCTTGTTTGCCATGGCTGCCTCCAGAACCAAACCTGATCACCTCTA
                                   ctcttctccattcgtt  CT-rich tract