Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggctacttctcaattcatgatgccatgtttttttttatattgtggttttacataatacatagcatcttccagcttcctgaagagtattactgaatagattgataacatcatacacacgaagttcatcttgaacatgcttattagtgttctgtttgcatctgatggtatggcatcatctttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGAAGGATTATGTGCATGTGCGCATCCAGCAGCGCAACGGCAGAAAGAGTCT

Basic information

species Zea mays
transcript GRMZM2G073535_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073535_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g41900.3 (Oryza sativa), 3'ss of exon 2
gtatggctacttctcaattcatgatgccatgtttttttttatattgtggttttacataatacatagcatcttccagcttcctgaagagtattactgaatagat-tgataacatcatacacacgaagttcatcttgaacatgcttattagtgttctgtttgcat-ctgatggtatggcatcatctttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGAAGGATTATGTGCATGTGCGCATCCAGCAGCGCAACGGCAGAAAGAGTCT
                                                                                   || ||  | ||  |  | || |||| |     ||     ||| ||| | |      |   |  |  | | || | ||  | |||||| | | ||||  | ||||||||||||||||||||||||||||||||||||||| || ||||| |||||| | ||||||||||||||||||||||||||||||||||||||||||||||||||
-----------------------------------------------------------------------------------aacagcgt-acatagcatatgtgatga-gctgtat---tgaaattcctatctgttct--ctggtgatatcctatctgtgttctgatgatgttgcattgt-tttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCCGGCGCTGGCCCTGGAGCAAAGGATTATGTGCATGTGCGCATCCAGCAGCGCAACGGCAGAAAGAGTCT
















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|78122596|gb|DV540980.1|DV540980
EST:     ACAACCAAGTTTCATGTCTGATCTCGACGTCCAGCTTCCATCTGCCTTTG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACAA
genomic: ACAACCAAGTTTCATGTCTGATCTCGACGTCCAGCTTCCATCTGCCTTTGgtatggctac ... tctttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGA
EST: gi|89757709|gb|DY687197.1|DY687197
EST:     -CAACCAAGTTTCATGTCTGATCTCGACGTCCAGCTTCCATCTGCCTTTG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGA
genomic: ACAACCAAGTTTCATGTCTGATCTCGACGTCCAGCTTCCATCTGCCTTTGgtatggctac ... tctttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGA
EST: gi|9732040|gb|BE510792.1|BE510792
EST:     ACAACCAAGTTTCATGTCTGATCTCGACGTCCAGCTTCCATCTGCCTTTG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGA
genomic: ACAACCAAGTTTCATGTCTGATCTCGACGTCCAGCTTCCATCTGCCTTTGgtatggctac ... tctttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGA
EST: gi|18172656|gb|BM348044.1|BM348044
EST:     ACAACCAAGTATCATGTCTGATCTCGACGTCCAGCTTCCATCTGCCTTTG                         ATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGA
genomic: ACAACCAAGTTTCATGTCTGATCTCGACGTCCAGCTTCCATCTGCCTTTGgtatggctac ... tctttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacatgcttattagtgttctgtttgcatctgatggtatggcatcatctttgatagATCCGTTTGCTGAGGCAAATGCTGAGGACTCTGGTGCTGGTCCTGGAACGAAGGATTATGTGCATGTGCGCATCCAGCAGCGCAACGGCAGAAAGAGTCT
                          atctgat  putative branch site (score: 4)
                                          tcatcttt  putative PPT
       ttattagt  TA-rich tract