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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatcttctgacctcatatatggtggaacctgtatttagccgattcaactctaatttttgttatccctgtatatttcaggaaaaataattatttgaatctgtttaatatgcctttttaattgaattgttgttacaatggaaaaaaactcattgccttccttgtcatactgtttctttttgtttgtagGGATATGGATCATTTTTACTTCGAGATCTGCCTTTTGATGCCATTCAATTCTGTATATATGAGCAACTTCGAATTGGTTACAAAGTTGTG

Basic information

species Oryza sativa
transcript LOC_Os05g29860.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g29860.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G042027_T05 (Zea mays), 3'ss of exon 7
gtatgtatcttctgacctcatatatggtggaacctgtatttagccgattcaactctaatttttgttatccctgtatatttcaggaaaaataattatttgaatctgtttaatatgcctttttaattgaattgttgttacaatggaaaaaaactcattgccttccttgtcatactgtttctttttgtttgtagGGATATGGATCATTTTTACTTCGAGATCTGCCTTTTGATGCCATTCAATTCTGTATATATGAGCAACTTCGAATTGGTTACAAAGTTGTG
|||||| | ||||| | || ||| ||||            || |    |  |   | | || ||||       |  ||| | |    | |  | || |||    || |||  |   ||  || || || |     ||   ||  | || |  ||||        | |||  | ||||||||| |||||||||| ||||| || ||| ||||||||||||| || ||||||||||| || ||||| || |||||||||||||||||||| |||||| |||||
gtatgtgtattctggcatcttatttggt------------taacaatctttatattgacttctgtttgaaggatgaattactgatttactgttgatctgag---gtgtaaattttgttcctattttaaata----tatcttgtgataatatccatta-------tatcac-cggtttcttttggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTCTGCATTTATGAGCAACTTCGAATTGGCTACAAACTTGTG
















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|29675292|gb|CB671567.1|CB671567
EST:     ATGCTGTTCGTCTCATTGTTGGTAAAGAAGGATTCAGAGGTCTTTACGCT                         GGATATGGATCATTTTTACTTCGAGATCTGCCTTTTGATGCCATTCAATTC
genomic: ATGCTGTTCGTCTCATTGTTGGTAAAGAAGGATTCAGAGGTCTTTACGCTgtatgtatct ... ttgtttgtagGGATATGGATCATTTTTACTTCGAGATCTGCCTTTTGATGCCATTCAATTC
EST: gi|66915672|gb|CX102520.1|CX102520
EST:     GCTGTCCGTCTCATTGTTGGTAAAGAAGGATTCATTAGGTCTTTACGCT                         GGATATGGATCATTTTTACTTCGAGATCTGCCTTTTGATGCCATTCAATTC
genomic: GCTGTTCGTCTCATTGTTGGTAAAGAAGGATTCA-GAGGTCTTTACGCTgtatgtatct ... ttgtttgtagGGATATGGATCATTTTTACTTCGAGATCTGCCTTTTGATGCCATTCAATTC
EST: gi|33683403|gb|CF311642.1|CF311642
EST:     ATGCTGTTCGTCTCATTGTTGGTAAAGAAGGATTCAGAGGTCTTTACGCT                         GGATATGGATCATTTTTACTTCGAGATCTGCCTTTTGATGCCATTCAATTC
genomic: ATGCTGTTCGTCTCATTGTTGGTAAAGAAGGATTCAGAGGTCTTTACGCTgtatgtatct ... ttgtttgtagGGATATGGATCATTTTTACTTCGAGATCTGCCTTTTGATGCCATTCAATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaatggaaaaaaactcattgccttccttgtcatactgtttctttttgtttgtagGGATATGGATCATTTTTACTTCGAGATCTGCCTTTTGATGCCATTCAATTCTGTATATATGAGCAACTTCGAATTGGTTACAAAGTTGTG
                                   ctgtttctttttgttt  CT-rich tract
       aaaaaaact  TA-rich tract