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'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcactacagactcaatccattagataattcatgttaatatattttgtttcttattaataattgattcattgttcttgtagGTTCTCGAACAATTGGTGTTATAACAAAG

Basic information

species Oryza sativa
transcript LOC_Os01g69130.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g69130.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G129155_T02 (Zea mays), 3'ss of exon 2
-----------gtattcactacagactcaatccattagataattcatgttaatatattttgtttcttattaataattgattcattgttcttgtagGTTCTCGAACAATTGGTGTTATAACAAAG
            |    | |  |    |  |||| || |  |||   ||| | | || ||   |||||| |  |  ||||| ||| || |  ||||||||||||||||||||||||| ||||||
gtatgtgtgccctgcataatctacgtcctgtccactataacatttcagttcagaaatatta--tcttatcatga--tgatttattattttcatagGTTCTCGAACAATTGGTGTTATCACAAAG

upper sequence: LOC_Os01g69130.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G180335_T01 (Zea mays), 3'ss of exon 2
----gtattcactacagactcaat---ccattagataattcatgttaatatattttgtttcttattaataattgattcattgttcttgtagGTTCTCGAACAATTGGTGTTATAACAAAG
    || | | || || | |  ||   |  |    ||   ||| | | ||    ||| |   |   ||| ||  ||| ||| |||||| |||||||||||||||||||||||| ||||||
gtatgtgtgccctgcataatttatgtcctgtccactagaacatttcagtaagaattggtatcttacaatgatc-atttattattcttgcagGTTCTCGAACAATTGGTGTTATCACAAAG
















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|86826290|gb|CI311113.1|CI311113
EST:     TCGAATTCTGATGCTCTTCAAATTGCTCGAAATGCTGACCCTGATG                         GTTCTCGAACAATTGGTGTTATAACAAAG
genomic: TCGAATTCTGATGCTCTTCAAATTGCTCGAAATGCTGACCCTGATGgtattcacta ... gttcttgtagGTTCTCGAACAATTGGTGTTATAACAAAG
EST: gi|58654479|gb|CK043159.1|CK043159
EST:     CTTATCGAATTCTGATGCTCTTCAAATTGCTCGAAATGCTGACCCTGATG                         GTTCTCGAACAATTGGTGTTATAACAAAG
genomic: CTTATCGAATTCTGATGCTCTTCAAATTGCTCGAAATGCTGACCCTGATGgtattcacta ... gttcttgtagGTTCTCGAACAATTGGTGTTATAACAAAG
EST: gi|29655723|gb|CB651998.1|CB651998
EST:     CTTATCGAATTCTGATGCTCTTCAAATTGCTCGAAATGCTGACCCTGATG                         GTTCTCGAACAATTGGTGTTATAACAAAG
genomic: CTTATCGAATTCTGATGCTCTTCAAATTGCTCGAAATGCTGACCCTGATGgtattcacta ... gttcttgtagGTTCTCGAACAATTGGTGTTATAACAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattcatgttaatatattttgtttcttattaataattgattcattgttcttgtagGTTCTCGAACAATTGGTGTTATAACAAAG
                                           ttgttctt  CT-rich tract
     atgttaatatattttg  TA-rich tract