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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgggtgcattttaatgtttttttattcttctaagctccttatagtttactaactagcgtttttttccagGCATGTGCATCCCTAGAACCAAATTACCAGCCTCCTGTAACATTTGTGGTGGTTCAAAAACGTCATCATACAAGACTATTTGCAAATAATCACAAAGACA

Basic information

species Zea mays
transcript GRMZM2G079080_T01
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 17
gttgggtgcattttaatgtttttttattc-----ttctaagctccttat--agtttactaactag-cgtttttttccagGCATGTGCATCCCTAGAACCAAATTACCAGCCTCCTGTAACATTTGTGGTGGTTCAAAAACGTCATCATACAAGACTATTTGCAAATAATCACAAAGACA
||| | |||||||  || ||| |||| ||     || |   | | ||||   |||  || || |   ||||| ||  ||||||||||||| |||||||||||||| ||||||||||||||||| ||||| || ||||| ||||| ||||||||||| || ||||| |||||||||||||
gttagatgcatttgtat-tttctttactcagatattttgtccactttattaggttgcctgacgaaatgttttcttttagGCATGTGCATCTCTAGAACCAAATTATCAGCCTCCTGTAACATTCGTGGTTGTCCAAAAGCGTCACCATACAAGACTCTTCGCAAACAATCACAAAGACA

upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA06G23920.1 (Glycine max), 3'ss of exon 17
---------gttgggtgcattttaat---gtt----tttttattcttctaagctccttatagtttactaactagcgtttttttccagGCATGTGCATCCCTAGAACCAAATTACCAGCCTCCTGTAACATTTGTGGTGGTTCAAAAACGTCATCATACAAGACTATTTGCAAATAATCACAAAGACA
                 || ||||     |||    ||||||||  | |    | | |  | | | || | |    ||| | |  |||| ||||||||  | ||||| | |||||| ||||| |||||||||||  | ||||||||||| ||||| || ||||| || ||||| |||||  | ||||
gtacctggaaaaaaaaacaatttagcaaagttataatttttattactgtggcattcct-caatattcttattc-tttttgtgtatagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCAGTAACATTTGTTATTGTTCAAAAACGGCATCACACTAGACTCTTCGCAAACAATCATGATGACA

upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 18
gttgggtgcattttaatgtttttttattcttctaagctccttatagtt-tactaactagc-gtttttttccagGCATGTGCATCCCTAGAACCAAATTACCAGCCTCCTGTAACATTTGTGGTGGTTCAAAAACGTCATCATACAAGACTATTTGCAAATAATCACAAAGACA
||  ||  || |||  | |  |  ||  ||| |   ||  ||||     | || |  ||   | | | |  |||||||||| ||| |||||||||| ||||||||||| ||||| ||  | || || |||||| | ||||||||  |  |||||||||| ||  |||  ||||
gtcaggatcactttc-tctcatcatacacttgttttcttattatgtcaattctgagaagttatatctgtgtagGCATGTGCTTCCTTAGAACCAAACTACCAGCCTCCAGTAACTTTCATAGTTGTGCAAAAAAGACATCATACCCGGTTATTTGCAAACAACTACAGGGACA

upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 17
---gttgggtgcattttaatgtttttttattcttctaagctccttatagtttactaactagcgtttt--tttccagGCATGTGCATCCCTAGAACCAAATTACCAGCCTCCTGTAACATTTGTGGTGGTTCAAAAACGTCATCATACAAGACTATTTGCAAATAATCACAAAGACA
    ||||    |||  | |  | |||  || |  | |       ||     | |   ||   | ||  | |  |||| ||||||||  | ||||| | |||||| ||||| ||||||||||| ||||||||||| || ||||| || ||||| ||  |||| |||||  | ||||
gtacttggacaaattacagttatatttatttatatttattatgacatttcccaatgcttaatttcttaatgtgtagGCTTGTGCATCTTTGGAACCTAGTTACCAACCTCCGGTAACATTTGTTGTGGTTCAAAAGCGACATCACACTAGACTCTTCTCAAACAATCATGACGACA

upper sequence: GRMZM2G079080_T02 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 18
gttgggtgcatttta-------atgtttttttattcttctaagctccttatagtttactaactagc-gtttttttccagGCATGTGCATCCCTAGAACCAAATTACCAGCCTCCTGTAACATTTGTGGTGGTTCAAAAACGTCATCATACAAGACTATTTGCAAATAATCACAAAGACA
||  ||  || |||        ||    || | ||||| | |  ||       | | || |  ||   | | | |  |||||||||| ||| |||||||||| ||||||||||| ||||||||  | || || |||||| | ||||||||  |  |||||||||| ||  |||  ||||
gtcaggatcactttctctcattatacacttgttttcttattatgtcaaagatatgttctgagaagttatatctgtgtagGCATGTGCTTCCTTAGAACCAAACTACCAGCCTCCAGTAACATTCATAGTTGTGCAAAAAAGACATCATACCCGGTTATTTGCAAACAACTACAGGGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttttattcttctaagctccttatagtttactaactagcgtttttttccagGCATGTGCATCCCTAGAACCAAATTACCAGCCTCCTGTAACATTTGTGGTGGTTCAAAAACGTCATCATACAAGACTATTTGCAAATAATCACAAAGACA
                                tactaac  putative branch site (score: 0)
                                          cgtttttttcc  putative PPT
     ttttattcttctaa  TA-rich tract