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

gtacgcttcctgtccaaatatatgacccaatcataatcaattttgttgttttttctactgttgtttcaactaaattccatgttctatctgatggtgagaatttaacagGTGATGAGTGTAAAAGCTCTCGGCATTGCATTGAAGTTAACATTCTCAGGAGTGAACCAGTTATTCTATCCTCAGACATGGGCTTTTGCCCTAATTGTAG

Basic information

species Oryza sativa
transcript LOC_Os11g09140.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g09140.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G104147_T03 (Zea mays), 3'ss of exon 5
gtacgcttcctgtccaa-atatatgacccaatcataatcaattttgttgttttttctactgttgtttcaactaaattccatgttctatctgatggtgagaa-tttaacagGTGATGAGTGTAAAAGCTCTCGGCATTGCATTGAAGTTAACATTCTCAGGAGTGAACCAGTTATTCTATCCTCAGACATGGGCTTTTGCCCTAATTGTAG
||| | ||  | || |  |||||||   ||| ||| ||  ||||| |   |||||| ||||   |||||   |    |  | ||||||||||| |  |||| |||   |||| |||||||||| |||||| || ||||| |||||| ||||||||||||||   || || ||||||||||||||||| ||||| |||||  |||||||||
gtatgttttttttcaagtatatatggatcaaacatgat--attttttatgtttttcaactggaatttcacacagtaccatttttctatctgatagctagaagttttgtagGTTATGAGTGTAAGAGCTCTTGGAATTGCCTTGAAGCTAACATTCTCAGGAACAAATCAATTATTCTATCCTCAGACTTGGGCCTTTGCAGTAATTGTAG

upper sequence: LOC_Os11g09140.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G129268_T01 (Zea mays), 3'ss of exon 5
gtacgcttcctgtccaa-atatatgacccaatcataatcaattttgttgttttttctactgttgtttcaactaaattccatgtt-ctatctgatggtgagaa-tttaacagGTGATGAGTGTAAAAGCTCTCGGCATTGCATTGAAGTTAACATTCTCAGGAGTGAACCAGTTATTCTATCCTCAGACATGGGCTTTTGCCCTAATTGTAG
||| | ||     | |  |||||||   ||| ||| ||  ||||| || | ||| | |   |   ||  || |||| |||| || ||||||||| ||  |||  ||  ||||| |||||||||| |||||| || ||||| |||||| ||||||| ||||||   ||||| ||||||||||||||||| ||||| ||||| || |||||||
gtatgtttttctccaagtatatatggatcaagcatgat--atttt-ttatgtttgccaacttgaatttcacaaaataccatttttctatctgatagtatgaagctttgcagGTTATGAGTGTAAGAGCTCTTGGAATTGCCTTGAAGCTAACATTGTCAGGAACAAACCAATTATTCTATCCTCAGACTTGGGCCTTTGCACTGATTGTAG
















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|33678556|gb|CF306795.1|CF306795
EST:     CAAACATCATGGTGTACATCGGAGTCTGTTCTCTTCTAGGATCTCTCACT                         GTGATGAGTGTAAAAGCTCTCGGCATTGCATTGAAGTTAACATTCTCAGGA
genomic: CAAACATCATGGTGTACATCGGAGTCTGTTCTCTTCTAGGATCTCTCACTgtacgcttcc ... aatttaacagGTGATGAGTGTAAAAGCTCTCGGCATTGCATTGAAGTTAACATTCTCAGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctactgttgtttcaactaaattccatgttctatctgatggtgagaatttaacagGTGATGAGTGTAAAAGCTCTCGGCATTGCATTGAAGTTAACATTCTCAGGAGTGAACCAGTTATTCTATCCTCAGACATGGGCTTTTGCCCTAATTGTAG
              aactaaatt  TA-rich tract