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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgtcatactgtttgagggtttgttgtctaaatggaagtcatgtacatatcgttggtgtcagcgtgccgtttatgtcaaatttctgattttgtatttgtagGGAACAAGACCAGTGGATTCAATGTGACGAGTGCTCAAAATGGCGCCGGTTGCCTCTTAATGTTATTGTTGCATCCAAATGGACATGCACCGACAACTCA

Basic information

species Zea mays
transcript GRMZM2G158162_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158162_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os07g48200.1 (Oryza sativa), 3'ss of exon 9
cgtcatactgtttgagggtttgttgtctaaatggaagtcatgtacatatcgttggtgtcagcgtgccgtttatgtcaaatttctgattttgtatttgt-agGGAACAAGACCAGTGGATTCAATGTGACGAGTGCTCAAAATGGCGCCGGTTGCCTCTTAATGTTATTGTTGCATCCAAATGGACATGCACCGACAACTCA
 |  ||  | ||  ||||||||   |||  || ||   |||  | ||||  |  ||| ||| |     ||| || ||| |  || | | ||||||| | ||||||||||| || |||||||||||||| || |||||||||||||||||||| || ||||||||||||||||||||||| ||||||||  | |||||| ||
tgatatcattttaaagggtttgccctctgcatagacaccatacaaatattctctgtgccagtgactaatttttgccaa-taccttactgtgtattttttagGGAACAAGATCAATGGATTCAATGTGATGATTGCTCAAAATGGCGCCGGTTACCACTTAATGTTATTGTTGCATCCAAGTGGACATGTGCTGACAACACA
















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|148956308|gb|EC902110.2|EC902110
EST:     AAGAGATCAATTTTTACCATCCGTGCAACAGG                         GGAACAAGACCAGTGGATTCAATGTGACGAGTGCTCAAAATGGCGCCGGTT
genomic: AAGAGATCAATTTTTACCATCCGTGCAACAGGgtaagtcaga ... gtatttgtagGGAACAAGACCAGTGGATTCAATGTGACGAGTGCTCAAAATGGCGCCGGTT
EST: gi|60397624|gb|DN230440.1|DN230440
EST:     GAACCCCCTGTCTTTGCAAAGAGATCAATTTTTACCATCCGTGCAACAGG                         GGAACAAGACCAGTGGATTCAATGTGACGAGTGCTCAAAATGGCGCCGGTT
genomic: GAACCCCCTGTCTTTGCAAAGAGATCAATTTTTACCATCCGTGCAACAGGgtaagtcaga ... gtatttgtagGGAACAAGACCAGTGGATTCAATGTGACGAGTGCTCAAAATGGCGCCGGTT
EST: gi|67034443|gb|CO462993.1|CO462993
EST:     GAACCCCCTGTCTTTGCAA-GAGATCGATTTTTACCATCCGTGCAATANG                         GGAAACA-GACCAGTGGATTCAATGTGATGAGTGCTCAAAATGGCGCCGGT
genomic: GAACCCCCTGTCTTTGCAAAGAGATCAATTTTTACCATCCGTGCAACAGGgtaagtcaga ... gtatttgtagGGAA-CAAGACCAGTGGATTCAATGTGACGAGTGCTCAAAATGGCGCCGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatcgttggtgtcagcgtgccgtttatgtcaaatttctgattttgtatttgtagGGAACAAGACCAGTGGATTCAATGTGACGAGTGCTCAAAATGGCGCCGGTTGCCTCTTAATGTTATTGTTGCATCCAAATGGACATGCACCGACAACTCA
                                   ttctgat  putative branch site (score: 3)
                       tttatgtcaaattt  TA-rich tract