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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacataatttttttagattcccttttccggtctattattttatgcatactaggggtttgctattttatcttttcttttgcttactctcttcctaaatttgcagAGACATCAAAGGTGCAAACATATTGGTAGACCCTAATGGCCGTGTAAAGCTTGCTGACTTTGGGATGGCAAAACAT

Basic information

species Zea mays
transcript GRMZM2G093316_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G093316_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g44642.1 (Oryza sativa), 3'ss of exon 6
gtaacata--atttttttagattcccttttccggtctattattttatgcatactaggggtttgctattttatcttttcttttgcttactctcttcctaaatttgcagAGACATCAAAGGTGCAAACATATTGGTAGACCCTAATGGCCGTGTAAAGCTTGCTGACTTTGGGATGGCAAAACAT
|||||||   ||||  ||   |      ||| |  ||    ||   |  ||   ||        |  |  ||  ||| | ||  ||    | ||||  ||||||||| ||||| ||||||||||||||| ||||||| |||||||| |||||||||||||||||||| || ||||||||||||
gtaacattccatttccttttgtcgttagttcagcacttcagttccttagatgtaagctaccaagttgtagattattt-tattatttgtcatgttccataatttgcagGGACATTAAAGGTGCAAACATACTGGTAGATCCTAATGGTCGTGTAAAGCTTGCTGACTTCGGAATGGCAAAACAT

upper sequence: GRMZM2G093316_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 6
---------------------gtaacataattttt--ttagattcccttttccggtctattattttatgcatactaggggtttgctattttatcttttcttttgcttactctcttcctaaatttgcagAGACATCAAAGGTGCAAACATATTGGTAGACCCTAATGGCCGTGTAAAGCTTGCTGACTTTGGGATGGCAAAACAT
                      |   | || |||   ||  | | | |  ||      |||| ||| |  |    || |   || ||| | |||| | |  ||  || |  |  |  ||||      | ||||||||||| ||||| ||| |||||||  |||||||||| || ||| | || |||||||| |||||||| |||
gtagacagagtcacttgttcatttttaaaactttgaattttactgcttcctcataatgattaatttttatacttcagagtcctgatatat-atctat-cacttaattgcatttcttgtaaa------gGGACATCAAAGGAGCAAATATACTGGTAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCAT

upper sequence: GRMZM2G093316_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA09G24970.2 (Glycine max), 3'ss of exon 5
------------------------gtaacataatttttttagattcccttttccggtctattattttatgcatactaggggtttgctattttatcttttcttttgcttactctcttcctaaatttgcagAGACATCAAAGGTGCAAACATATTGGTAGACCCTAATGGCCGTGTAAAGCTTGCTGACTTTGGGATGGCAAAACAT
                         ||| |   |   |||   | |    |     |   | ||||| |  |  | || |   || ||| | |||| |   ||   || |  |  |  ||||      | ||||||||||| ||||| ||| |||||||  |||||||||| || ||| | || |||||||| |||||||| |||
gtaaacagagtcacttgttcatttttaaaaccttaaattttactgctgcctcataatgattaattttttatactccagagtcctgatatat-atctatcacttacattgcatttcttgtaaa------gGGACATCAAAGGAGCAAATATACTGGTAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCAT

upper sequence: GRMZM2G093316_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT1G63700.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaacataatttttttagattcccttttccggtctattatttta-tgcatactaggggtttgctattttatcttttcttttgcttactctcttcctaaatttgcagAGACATCAAAGGTGCAAACATATTGGTAGACCCTAATGGCCGTGTAAAGCTTGCTGACTTTGGGATGGCAAAACAT
|| |   | |   ||   || |  | ||| | |   |  ||||  | ||| ||     |      ||  |   ||   |   | |    | |   |  |||  ||| ||||||||||| ||||| |||||||| || ||| |||| || |||||  ||||||| ||||||||||||||||||
gtgaggcagtgaattct-atccattcttctgatacctcgttttccttcatcct-----tcattagttggagaattagatgaacatggattttaattttatt--cagGGACATCAAAGGAGCAAATATATTGGTGGATCCTCATGGACGAGTAAAAGTTGCTGATTTTGGGATGGCAAAACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaggggtttgctattttatcttttcttttgcttactctcttcctaaatttgcagAGACATCAAAGGTGCAAACATATTGGTAGACCCTAATGGCCGTGTAAAGCTTGCTGACTTTGGGATGGCAAAACAT
                                         tcctaaa  putative branch site (score: 2)
           ctattttatcttttct  CT-rich tract
            tattttatcttttctt  TA-rich tract