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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcaatatgcttgcttcctatacatttatactttgtaacgtgtctaaaactgcagtttcttattggtcttatgacaaacagGTAATGCATGGTGCAGGTCGTGATATAATATGGCTTCAACGAGACTTCAGCATATATGTGTGCAACCTTTTTGACACAGGCCAG

Basic information

species Zea mays
transcript GRMZM2G118917_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G118917_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os10g30100.1 (Oryza sativa), 3'ss of exon 3
gtgcaatatgcttgc------ttcctatacatttatactttgtaacgtg-tctaaaactgcagtttcttattggtcttatgacaaacagGTAATGCATGGTGCAGGTCGTGATATAATATGGCTTCAACGAGACTTCAGCATATATGTGTGCAACCTTTTTGACACAGGCCAG
||  || |||||         ||   |||||| |  |  |||| |  || || ||   || || |||| |||| ||||||| || | |||||||||||||||||| |||||||||||||||||||||||| |||||  |||||||||| ||||||||||||||||||||||||
gtataacatgctctttcatcattttcatacatgtgcatattgttatatgctccaattgtgtagattctcattgctcttatggcacatagGTAATGCATGGTGCAGATCGTGATATAATATGGCTTCAACGGGACTTTGGCATATATGTATGCAACCTTTTTGACACAGGCCAG

upper sequence: GRMZM2G118917_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT1G54440.2 (Arabidopsis thaliana), 3'ss of exon 3
-------gtgcaatatgct---tgcttcctatacatttatactttgtaacgtgtctaaaactgcagtttcttattggtcttatgacaaacagGTAATGCATGGTGCAGGTCGTGATATAATATGGCTTCAACGAGACTTCAGCATATATGTGTGCAACCTTTTTGACACAGGCCAG
           |||  ||    || || ||| | | ||      |  ||  |   ||| ||   |       |||   ||||     |  ||||||| ||||| |||| ||| ||||| || ||||||||||| |||||  |||| ||||| ||||| |||||||||||||| |||
gttttctccataatgcgcaatgtgttttctacagaatt----cctagaatatagttaatacaatatgaaaccatttaactta-----actagGTAATCCATGGAGCAGATCGAGATATTATTTGGCTTCAACGGGACTTTGGCATTTATGTCTGCAATCTTTTTGACACAGGACAG

upper sequence: GRMZM2G118917_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT5G35910.1 (Arabidopsis thaliana), 3'ss of exon 3
-----gtgcaatatgcttgcttcctatacatttatactttgtaacgtgtctaaaactgcagtttcttattggtcttatgacaaacagGTAATGCATGGTGCAGGTCGTGATATAATATGGCTTCAACGAGACTTCAGCATATATGTGTGCAACCTTTTTGACACAGGCCAG
            || |||   | | ||  |   |   | |  ||  | | |    |||   | |   ||  || |||||  ||  ||||||||||||| |||| ||| ||||| || ||||||||||| |||||| |||||||||| ||||| || ||||||||||| |||
gtttttcctgggatacttcaattccat-tacaaaaggtctaaaatatatttt---ctgtgctctgaaatctgt-ttatg-taattagGTAATGCATGGAGCAGATCGAGATATTATCTGGCTTCAACGGGACTTCGGCATATATGTCTGCAATCTCTTTGACACAGGACAG

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|211507738|gb|FL332402.1|FL332402
EST:     ATCTTGGTGATTATCTAAGAGAGTTTTTCAGAGATCCAACCAAGAAAAAG                         GTAATGCATGGTGCAGGTCGTGATATAATATGGCTTCAACGAGACTTCAGC
genomic: ATCTTGGTGATTATCTAAGAGAGTTTTTCAGAGATCCAACCAAGAAAAAGgtgcaatatg ... tgacaaacagGTAATGCATGGTGCAGGTCGTGATATAATATGGCTTCAACGAGACTTCAGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatactttgtaacgtgtctaaaactgcagtttcttattggtcttatgacaaacagGTAATGCATGGTGCAGGTCGTGATATAATATGGCTTCAACGAGACTTCAGCATATATGTGTGCAACCTTTTTGACACAGGCCAG
                             tttcttatt  TA-rich tract