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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtatgttttttgtgttataactgcaaagatagagcaattaccatccagatggtcattgtacggttttgatgtgataactcaccatgttcttaatttctactttattccaaagGTTAAACTGAGGGAAATGAAGCCAGGCATGCTGTCTCGTGAGCTTAAAGATGCTCTTGGTATGCCTGATGGCGCCCCTCCCCCATGGCTTATAAACATGC

Basic information

species Zea mays
transcript GRMZM2G132060_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G132060_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 8
gtacgtatgttttttgtgttataactgcaaagatagagcaattaccatccagatggtcattgtacggttttgatgtgataactcaccatgttcttaatttctactttattccaaagGTTAAACTGAGGGAAATGAAGCCAGGCATGCTGTCTCGTGAGCTTAAAGATGCTCTTGGTATGCCTGATGGCGCCCCTCCCCCATGGCTTATAAACATGC
          ||||  |   ||   | |   |||  ||  |  |   || ||||  |||  | ||  | |  | || ||||||     | || ||| ||| ||   |  |    |||| ||  |||| || ||||| || |||||| | || | |||  | ||||| ||||||||||||||||| || || ||||| ||||||||||| || ||||
----------ttttgctaagatgtttcccttgatctagtta--agtgtcaagattatca--gcacc-tataaaagttataacttggt-tcttattattttatataatgctgttcagGTAAAGTTGAGAGAGATGAAACCTGGCATGTTATCACATGAATTAAAAGAAGCTCTTGGTATGCCTGAGGGTGCTCCTCCACCATGGCTTATTAATATGC

upper sequence: GRMZM2G132060_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 7
gtacgtatgttttttgtgttataactgcaaagatagagcaattaccatccagatggtcattgtacggttttgatgtgataactcaccatgttcttaatttctactttattccaaa--gGTTAAACTGAGGGAAATGAAGCCAGGCATGCTGTCTCGTGAGCTTAAAGATGCTCTTGGTATGCCTGATGGCGCCCCTCCCCCATGGCTTATAAACATGC
    |||  ||  |||||  ||   |    || |  | | || |  |          |||||   |||||   || | |   | |||       ||||| |||   | |   |||  ||||||||||||||||| ||| |||||  |  ||||    ||  | ||||| ||||||||||||||||| ||||| |||||||||||||| || |||||||
----gta-attccttgtgacatgttttttcagctttatctataatta----------cattgcttggtttcattg-gtttgtttacctaaaatctaattactatcatttgggaaatagGTTAAACTGAGGGAAACGAAACCAGGGTTTTTGTCAAACGACTTAAAAGAAGCTCTTGGTATGCCTGAAGGCGCTCCTCCCCCATGGCTGATTAACATGC
















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|13382081|gb|BG458756.1|BG458756
EST:     CCAAGCTGTCTAGTCATGGTGATCTGTATTATGAAGGCAAAGAATTTGAG                         GTTAAACTGAGGGAAATGAAGCC
genomic: CCAAGCTGTCTAGTCATGGTGATCTGTATTATGAAGGCAAAGAATTTGAGgtacgtatgt ... tattccaaagGTTAAACTGAGGGAAATGAAGCC
EST: gi|21843267|gb|BQ703848.1|BQ703848
EST:     CCAAGCTGTCTAGTCATGGTGATCTGTATTATGAAGGCAAAGAATTTGAG                         GTTAAACTGAGGGAAATGAAGCCAGGCATGCTGTCTCGNGAGCTTAAAGAT
genomic: CCAAGCTGTCTAGTCATGGTGATCTGTATTATGAAGGCAAAGAATTTGAGgtacgtatgt ... tattccaaagGTTAAACTGAGGGAAATGAAGCCAGGCATGCTGTCTCGTGAGCTTAAAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacggttttgatgtgataactcaccatgttcttaatttctactttattccaaagGTTAAACTGAGGGAAATGAAGCCAGGCATGCTGTCTCGTGAGCTTAAAGATGCTCTTGGTATGCCTGATGGCGCCCCTCCCCCATGGCTTATAAACATGC
                                    tttctactttattcc  CT-rich tract
                                ttaatttctactttat  TA-rich tract