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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccatatagtacttcagaatagctgttaggattaattggcaggcccaatgacgtgtgtcgatgaattaagcatgaattattgattctcacatatatgcagTTTGCCTGCAATGCGCATACCATATGTGACCCTGAACTTAGGCCTCTTGGGACTGGACTGTACCCTGTCATATCCATTATTAACCACAG

Basic information

species Zea mays
transcript GRMZM2G457881_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G457881_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g49730.3 (Oryza sativa), 3'ss of exon 5
tccatatagtacttcagaatagctgttaggattaattggcaggcccaatgacgtgtgtcgatgaattaagcatgaattattgattctc----acatatatgcagTTTGCCTGCAATGCGCATACCATATGTGACCCTGAACTTAGGCCTCTTGGGACTGGACTGTACCCTGTCATATCCATTATTAACCACAG
      |   ||     |  ||  | ||||| || || |  |      || |  |       ||| ||||||||||| ||  || |||     ||||| |||||||||||||||| || |||||||||||||| |||||||| ||||| |||||||||||||| ||||||||  |||| ||||||||||||||
----agtctcacccttaagcagtggctaggactattttggtgattatctggctagacctttagaagtaagcatgaataatatatcctctgcctcatatgtgcagTTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGCCCCTTGGGACTGGACTATACCCTGTTTTATCTATTATTAACCACAG

upper sequence: GRMZM2G457881_T03 (Zea mays), 3'ss of exon 5
lower sequence: Vv18s0001g03730.t01 (Vitis vinifera), 3'ss of exon 5
-tccatatagtacttcagaatagctgttaggattaattggcaggcccaatgacgtgtgtcgatgaattaagcatgaattat--tgattctcacatatatgcagTTTGCCTGCAATGCGCATACCATATGTGACCCTGAACTTAGGCCTCTTGGGACTGGACTGTACCCTGTCATATCCATTATTAACCACAG
 |  || || |  |||     |  |  |   | |  |    |||   | ||| || ||  ||  | ||  |  |||| |||  |  ||||||  |   ||||| |||| |||||||| |||||||| |||||   |||||| || || ||||| |||||||| || |||||||| || ||||||||||||||
atttatttattttttcccctgaaat-ctgatacttttgcaaagggagattgatgtctgatga--atttttgtctgaaatatgatccttctcaattgcctgcagCTTGCATGCAATGCTCATACCATTTGTGATGGTGAACTAAGACCGCTTGGTACTGGACTATATCCTGTCATTTCAATTATTAACCACAG
















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|149023564|gb|EE045895.2|EE045895
EST:     TTCCTTTTATTGAGCTTGACCTTAAGGAAATTGCACAAACTTTTTCTAAG                         TTTGCCTGCAATGCGCATACCATATGTGACCCTGAACTTAGGCCTCTTGGG
genomic: TTCCTTTTATTGAGCTTGACCTTAAGGAAATTGCACAAACTTTTTCTAAGgtaataccta ... atatatgcagTTTGCCTGCAATGCGCATACCATATGTGACCCTGAACTTAGGCCTCTTGGG
EST: gi|71322965|gb|DR798157.1|DR798157
EST:     TTCCTTTTATTGAGCTTGACCTTAAGGAAATTGCACAAACTTTTTCTAAG                         TTTGCCTGCAATGCGCATACCATATGTGACCCTGAACTTAGGCCTCTTGGG
genomic: TTCCTTTTATTGAGCTTGACCTTAAGGAAATTGCACAAACTTTTTCTAAGgtaataccta ... atatatgcagTTTGCCTGCAATGCGCATACCATATGTGACCCTGAACTTAGGCCTCTTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatgacgtgtgtcgatgaattaagcatgaattattgattctcacatatatgcagTTTGCCTGCAATGCGCATACCATATGTGACCCTGAACTTAGGCCTCTTGGGACTGGACTGTACCCTGTCATATCCATTATTAACCACAG
                                      ttctcac  putative branch site (score: 2)
                          atgaattattgatt  TA-rich tract