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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgacctgtcttgaatgcacactattggccacactatcatatgaaaagtagtcatcatattggtttttggtgtgtgatgccagAAAGCAACTAAATGGTCAGAGAGAAGGGATGCTGTGGCAGAGCTAACCAAGCTTGCGTCAGCAAAAAAAATTGCTCCTGGTGATTTTCATGAAATTTGCC

Basic information

species Zea mays
transcript GRMZM2G070126_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G070126_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g60040.1 (Oryza sativa), 3'ss of exon 8
gtatgtgacctgtcttgaatgca---------cactattggccacactatcata-tgaaaagtagtcatcatattggt-------ttttggtgtgtgatgccagAAAGCAACTAAATGGTCAGAGAGAAGGGATGCTGTGGCAGAGCTAACCAAGCTTGCGTCAGCAAAAAAAATTGCTCCTGGTGATTTTCATGAAATTTGCC
|||||||  |||  |||| ||||         || | |    ||||  || ||| |||||  | ||| || | |   |       ||||| | | |||| ||||||||| || || ||||| || |||||||||||||| || ||||||||||| ||||| ||| | |||||||||||||| ||||||||||||||||| ||||
gtatgtg--ctgatttgagtgcagcattgatacattgtccatcacaacattatagtgaaatattgtcctcttttgaatgattctattttgttatctgataccagAAAGCTACCAAGTGGTCTGAAAGAAGGGATGCTGTTGCCGAGCTAACCAAACTTGCTTCAACCAAAAAAATTGCTCCCGGTGATTTTCATGAAATCTGCC

upper sequence: GRMZM2G070126_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA20G32430.1 (Glycine max), 3'ss of exon 8
-------gtatgtgacctgtcttgaat-gcacactattggccacactatcatatgaaaagtagtcatcatattggtttttggtgtgtgatgc-cagAAAGCAACTAAATGGTCAGAGAGAAGGGATGCTGTGGCAGAGCTAACCAAGCTTGCGTCAGCAAAAAAAATTGCTCCTGGTGATTTTCATGAAATTTGCC
        | ||   | | ||| | || | || |  |     |  |     |||   |  ||   || |  |||  | |   |   | ||   |||||||| || |||||||| ||  | | ||| ||||| || |||||||| |||||||| ||| | |||| |||| |||||||||||||   |||| |||| |
gttagttttctgccccatttctcggattgtactcagtaactaatgcacctttattttagcta--tatgagtttgaatctgtcttgttaatattcagAAAGCTACCAAATGGTCTGAACGGAAGGAGGCTGTTGCTGAGCTAACAAAGCTTGCATCAACTAAAAGAATTTCTCCTGGTGATTTCTCTGAAGTTTGTC

upper sequence: GRMZM2G070126_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 8
------------------------gtatgtgacctgtcttgaatgcacac---tattggccacacta--tcatatgaaaagtagtcatcatattggtttttggtgtgt-gatgc-cagAAAGCAACTAAATGGTCAGAGAGAAGGGATGCTGTGGCAGAGCTAACCAAGCTTGCGTCAGCAAAAAAAATTGCTCCTGGTGATTTTCATGAAATTTGCC
                        |  |||   | ||  | |||||||     | || |  | |     |   ||  |    |||       ||  ||||||   | |  ||   |||||||| || |||||||| ||  | | ||| ||||| || |||||||| |||||||| ||| | |||| |||| |||||||||||||   |||| |||| |
gtcagttttctgtcccatctctcggattgtactcagtaattaatgcacctatattttagttatatgggtttgaatctatctcagtttgttctttactttttgtcttattaatattcagAAAGCTACCAAATGGTCTGAACGGAAGGAGGCTGTTGCTGAGCTAACAAAGCTTGCATCAACTAAAAGAATTTCTCCTGGTGATTTCTCTGAAGTTTGTC

upper sequence: GRMZM2G070126_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT2G35630.1 (Arabidopsis thaliana), 3'ss of exon 8
---------------------------------------------gtatgtgacctgtcttgaatgcacactattg-gccacacta--------tcatatgaa----aagtagt-catcatattggtttttggtgtgtgatgc-cagAAAGCAACTAAATGGTCAGAGAGAAGGGATGCTGTGGCAGAGCTAACCAAGCTTGCGTCAGCAAAAAAAATTGCTCCTGGTGATTTTCATGAAATTTGCC
                                             ||   || | |    |||| | ||  | ||   | | || |        |||| |  |    | || |  ||| | | |   |   | ||| |       ||||||| || || ||||| ||  | |  || ||||| ||||||||||| |||||||| ||  | ||||| || |||||||||||||||   |||||||| |
gtgagttttgatgcttaatgcacattttactatgttttatttcttgtggttgtctttcactgaaagaacttttttatactataccacttacttctcatgttgattgcatgtggcacattacactaactaacgatgtatcccttatagAAAGCTACAAAGTGGTCCGAACGTAAAGAAGCTGTTGCAGAGCTAACAAAGCTTGCTTCGACTAAAAAGATAGCTCCTGGTGATTTTTCAGAAATTTGTC

upper sequence: GRMZM2G070126_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv10s0116g00490.t01 (Vitis vinifera), 3'ss of exon 8
--------------------------------------------gtatgtgacctgtcttgaatgcacactattg--------gccacactatcatatgaaaagtagtcatcatattggtttttggtgtgtgatgccagAAAGCAACTAAATGGTCAGAGAGAAGGGATGCTGTGGCAGAGCTAACCAAGCTTGCGTCAGCAAAAAAAATTGCTCCTGGTGATTTTCATGAAATTTGCC
                                             ||  |    |||  ||  |  | ||| |||          | | | ||||| | |  ||  || |     ||    ||| || |||  |   ||||||| || ||||||||||| |||| ||| ||||| |||||||| |||||||| || ||| | ||||  || || |||||||||||    ||||||||  
gtcagtgctttctctctctctcatctcttattcagtgacatttgctacttattttgttgtgttttaatactgttgttattttgatctctcaatcatgttattagaggttagttctttaacattttgtttgtcct-ttagAAAGCTACCAAATGGTCAGAAAGAAAGGAGGCTGTTGCAGAGCTGACCAAGCTAGCTTCAACTAAAAGGATAGCACCTGGTGATTTCACAGAAATTTGTA

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|211274055|gb|FL438415.1|FL438415
EST:     CTGTAGACATTTTAACCCCACTAGAAAAGTCTGGATTTTGGGACGGTGTG                         AAAGCAACTAAATGGTCAGAGAGAAGGGATGCTGTGGCAGAGCTAACCAAG
genomic: CTGTAGACATTTTAACCCCACTAGAAAAGTCTGGATTTTGGGACGGTGTGgtatgtgacc ... gtgatgccagAAAGCAACTAAATGGTCAGAGAGAAGGGATGCTGTGGCAGAGCTAACCAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccacactatcatatgaaaagtagtcatcatattggtttttggtgtgtgatgccagAAAGCAACTAAATGGTCAGAGAGAAGGGATGCTGTGGCAGAGCTAACCAAGCTTGCGTCAGCAAAAAAAATTGCTCCTGGTGATTTTCATGAAATTTGCC
          atatgaaaa  TA-rich tract