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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tataagtcaataagtttgctaatagttttttttctgcatgactgcaactattttgaggggttggatgcaatgccaacctgttaatctctctttgtagcagGGTTGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTACAAACAAAGTTGTTTGTTGCCATTTCTCATTGGATGGGAAACTTCTTGCCACCGGAGGGCA

Basic information

species Zea mays
transcript GRMZM2G361398_T02
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G361398_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os01g42270.1 (Oryza sativa), 3'ss of exon 12
------tataa-gtcaataagt-ttgctaatagttttttttctgcatgactgcaactattttg-aggggttggatgcaatgccaacctgttaatctctctttgtagcagGGTTGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTACAAACAAAGTTGTTTGTTGCCATTTCTCATTGGATGGGAAACTTCTTGCCACCGGAGGGCA
      ||    || |   ||| ||     ||  | || ||  || |||||  || ||||| | || |  |  |||||     ||| ||||     |||||||| | |||||| |||||||  |||||||||||||| ||||| ||||||||||| |||| |||||| |||||||| | ||||||||||||||| ||||| ||||| ||
ctttactagggtgttatagagtattagagttatgtgttctttagcttgactagaattatttggcagagactaaatgca----taacatgtt-----ctctttgttgtagGGTTTGGTTTTATCGAGGTTGCAAAAGCTCGTGCAAGTACAAACAAGGTTGATTGTTGTCATTTCTCGTCGGATGGGAAACTTCTAGCCACGGGAGGCCA
















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|21760046|gb|BQ635587.1|BQ635587
EST:     ATGGATCCTCGAGAAACAATGGGACGCTGCATGGATTCTAGTAAAG                         GG-TGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTACAAACAAAGTTG
genomic: ATGGATCCTCGAGAAACAATGGGACGCTGCATGGATTCTAGTAAAGgtttgttact ... tttgtagcagGGTTGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTACAAACAAAGTTG
EST: gi|166502240|gb|EG039410.1|EG039410
EST:     TGACATGGATCCTCGAGAAACAATGGGACGCTGCATGGATTCTAGTAAAG                         GGTTGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTAC
genomic: TGACATGGATCCTCGAGAAACAATGGGACGCTGCATGGATTCTAGTAAAGgtttgttact ... tttgtagcagGGTTGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTAC
EST: gi|51593024|gb|CV072170.1|CV072170
EST:     TGACATGGATCCTCGAGAAACAATGGGACGCTGCATGGATTCTAGTAAAG                         GGTTGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTACAAACAAAGTTG
genomic: TGACATGGATCCTCGAGAAACAATGGGACGCTGCATGGATTCTAGTAAAGgtttgttact ... tttgtagcagGGTTGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTACAAACAAAGTTG
EST: gi|31358706|gb|CD443063.1|CD443063
EST:     ATGGATCCTCGAGAAACAATGGGACGCTGCATGGATTCTAGTAAAG                         GGTTGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTACAAACAAAGTTG
genomic: ATGGATCCTCGAGAAACAATGGGACGCTGCATGGATTCTAGTAAAGgtttgttact ... tttgtagcagGGTTGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTACAAACAAAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactattttgaggggttggatgcaatgccaacctgttaatctctctttgtagcagGGTTGGGTTTTACTGAGGTTGCAAAAGCCCGTGCGAGTACAAACAAAGTTGTTTGTTGCCATTTCTCATTGGATGGGAAACTTCTTGCCACCGGAGGGCA
                                 tgttaat  putative branch site (score: 3)
                                       tctctctttgt  CT-rich tract
                                 tgttaat  TA-rich tract