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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcattcaaactcacccatcagtgtgaactctgaattcatgttatagtaaaattgttgatttaaagaagcttctccttttttttttcttttccagAGTCGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC

Basic information

species Oryza sativa
transcript LOC_Os02g47410.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47410.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM5G849796_T01 (Zea mays), 3'ss of exon 7
gtttcattcaaactcacccatcagtgtgaactctgaattc-atgttatagtaaaatt--gttgatttaaag--aagcttctccttttttttttcttttccagAGTCGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC------
|||| |||  ||| ||| ||  |||    | ||||||||  ||| |||||||  |||   |  |||||||   |||||||| || ||    | ||||| ||||| || |||||||| ||||| ||||||||||||||||| ||      
gttttatttgaacccactcaatagtcaatattctgaattttatgctatagtagtattttatcaatttaaattcaagcttctactgtt----tcctttttcagAGCCGTTATTACAGGTCTCCAGAAGTACTTCTTGGTTATCCGTATCC
















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|58607868|gb|CK035901.1|CK035901
EST:     ATTTTGGATCAGCATGCTTGGAGGGTAAAACCATTTACTCGTATATTCAG                         AGTGGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC
genomic: ATTTTGGATCAGCATGCTTGGAGGGTAAAACCATTTACTCGTATATTCAGgtttcattca ... tcttttccagAGTCGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC
EST: gi|29638402|gb|CB643411.1|CB643411
EST:     ATTTTGGATCAGCATGCTTGGAGGGTAAAACCATTTACTCGTATATTCAG                         AGTCGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC
genomic: ATTTTGGATCAGCATGCTTGGAGGGTAAAACCATTTACTCGTATATTCAGgtttcattca ... tcttttccagAGTCGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC
EST: gi|58673354|gb|CK062040.1|CK062040
EST:     ATTTTGGATCAGCATGCTTGGAGGGTAAAACCCTTTACTCGTATATTCAG                         AGTCGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC
genomic: ATTTTGGATCAGCATGCTTGGAGGGTAAAACCATTTACTCGTATATTCAGgtttcattca ... tcttttccagAGTCGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC
EST: gi|58610888|gb|CK038600.1|CK038600
EST:     ATTTTGGATCAGCATGCTTGGAGGGTAAAACCATTTACTCGTATATTCAG                         AGTCGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC
genomic: ATTTTGGATCAGCATGCTTGGAGGGTAAAACCATTTACTCGTATATTCAGgtttcattca ... tcttttccagAGTCGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttatagtaaaattgttgatttaaagaagcttctccttttttttttcttttccagAGTCGGTATTACAGATCTCCGGAAGTACTTCTTGGTTACCC
             tgttgat  putative branch site (score: 4)
                             cttctccttttttttt  putative PPT
       taaaattgttgattta  TA-rich tract