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

gtaagaactcctcgttctagctgtagtgtccgtccttctcgcgcttctgaagcccgctattttttttttatataaagtttgacatcgatcatccccttccagGGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAACCTCTCGAGCCTCTACTGGTTTGACATCGCCGACAATCAGTTGAGCGGT

Basic information

species Zea mays
transcript GRMZM2G023715_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G023715_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g21230.1 (Oryza sativa), 3'ss of exon 5
gtaagaactcctcgttctagctgtagtgtccgtccttctcgcg--cttctgaagcccgctattttttttttatataaagtttgacatcgatcatccccttccagGGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAACCTCTCGAGCCTCTACTGGTTTGACATCGCCGACAATCAGTTGAGCGGT
|| |||| | ||| | | |||| | | | | | |||||| | | | | | | | ||| |||||| || || ||||||| |||| || || ||||||||||| |||||||||||||| |||| || || || | |||||| ||||| ||||||||||||||||| ||| |||
gtgagaattactcactggtgaattagtagacatacaattgggagacttctgcaacttagtgtctgg-----agaagaagactgacataatctgtc---tttcagGGCATTGAACTCAAATCAGTTCTCTGGAAAAATACCAGCTTCTATGGGCAATCTTTCCAACCTCTATTGGTTCGACATCGCCGACAATCAATTGTCAGGT
















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|76291830|gb|DV031398.1|DV031398
EST:     GCCAAAGCTGTCCTACAT                         GGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAA
genomic: GCCAAAGCTGTCCTACATgtaagaactc ... ccccttccagGGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAA
EST: gi|148981984|gb|EE028044.2|EE028044
EST:     CATGGCACCATCCCCGATGAGCTAGGAAGCCTGCCAAAGCTGTCCTACAT                         GGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAA
genomic: CATGGCACCATCCCCGATGAGCTAGGAAGCCTGCCAAAGCTGTCCTACATgtaagaactc ... ccccttccagGGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAA
EST: gi|76291831|gb|DV031399.1|DV031399
EST:     CATGGCACCATCCCCGATGAGCTAGGAAGCCTGCCAAAGCTGTCCTACAT                         GGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAA
genomic: CATGGCACCATCCCCGATGAGCTAGGAAGCCTGCCAAAGCTGTCCTACATgtaagaactc ... ccccttccagGGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAA
EST: gi|71768121|gb|DR966058.1|DR966058
EST:     CATGGCACCATCCCCGATGAGCTAGGAAGCCTGCCAAAGCTGTCCTACAT                         GGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAA
genomic: CATGGCACCATCCCCGATGAGCTAGGAAGCCTGCCAAAGCTGTCCTACATgtaagaactc ... ccccttccagGGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagcccgctattttttttttatataaagtttgacatcgatcatccccttccagGGCACTGAATTCGAACCAGTTCTCTGGGAAAATACCAGCTTCGCTGGGAAACCTCTCGAGCCTCTACTGGTTTGACATCGCCGACAATCAGTTGAGCGGT
                             gtttgac  putative branch site (score: 4)
 tcatccccttcc  putative PPT
 tattttttttttatat  TA-rich tract