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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caactttcctgtgtgtttaggaaaaaaagaagaaaaactttacaaccaattgaatgaagctcaaattattttgattaaatgtgacactatttgtcaatagATTTTGGGATGATGGGAGAATTCCGACAAGAACTTCGTGATGGATTTATTGAAGCTTGTCTTCATCTTGTTAACCGTGATTTTGATGCTTTAGCAAAAGA

Basic information

species Zea mays
transcript GRMZM2G305007_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G305007_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os04g54790.1 (Oryza sativa), 3'ss of exon 10
---------------------------------------caactttcctgtgtgtttaggaaaaaaagaagaaaaact------ttacaaccaattgaatgaagctcaaattattttgattaaatgtgacactat-ttgtcaa--tagATTTTGGGATGATGGGAGAATTCCGACAAGAACTTCGTGATGGATTTATTGAAGCTTGTCTTCATCTTGTTAACCGTGATTTTGATGCTTTAGCAAAAGA
                                         | |||   || |   ||   |   |      |||  |      || | |||  ||  ||||| ||      ||||| | ||  ||  ||| | | || || |  ||||||| || ||||||||||||||||||||||||||||||||||||||||||||||| |||||||| |||||||||||||||||||||| ||||||||||||
gtaataattgtgttattctgtttctgcctttaatgtttctgattttttagtcttggtaatgagttagttcctaaatttactcatttgctaccctttacatgaatcttgttccattttaactatctgaaacattttgttctctatgtagATTTCGGAATGATGGGAGAATTCCGACAAGAACTTCGTGATGGATTTATTGAAGCCTGTCTTCACCTTGTTAACCGTGATTTTGATGGTTTAGCAAAAGA

upper sequence: GRMZM2G305007_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA16G27500.1 (Glycine max), 3'ss of exon 10
--------------------------------------------------------------------caactttcctgtgtgtttag-gaaaaaaagaagaaaaac-tttacaaccaattgaatgaagctcaaatt--attttgattaaatgtgacactatttgtcaatagATTTTGGGATGATGGGAGAATTCCGACAAGAACTTCGTGATGGATTTATTGAAGCTTGTCTTCATCTTGTTAACCGTGATTTTGATGCTTTAGCAAAAGA
                                                                         || ||| |  ||||  || | ||| |||  ||||  ||  ||  | |||       ||  ||||  ||  ||  |   | |  |  | |||  ||||||||||||| ||||  || || |||  ||||||| | || || ||||| || ||||||||||| |||||||| ||||||||||||||||| || || || ||
gtaattgaagattgaatatttaatatttcaaattctttggtttcttggttgatgtttacatagatttgtcttgtttctgaggatttaatgatagaaataagcgaaacacttggaataacttgttcatttcttgaatttaatggtgcattctttttcccttcttttgcaatagATTTTGGTATGACTGGTGAGTTCAAACAAGAATTACGCGACGGATTCATCGAAGCTTGTCTACATCTTGTAAACCGTGATTTTGATGCATTGGCCAAGGA

upper sequence: GRMZM2G305007_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT1G71810.1 (Arabidopsis thaliana), 3'ss of exon 9
caactttcctgtgtgtttaggaaaaaaagaagaaaaactttacaaccaattgaatgaagctcaaattat--tttgattaaatgtgacactattt----gtcaatagATTTTGGGATGATGGGAGAATTCCGACAAGAACTTCGTGATGGATTTATTGAAGCTTGTCTTCATCTTGTTAACCGTGATTTTGATGCTTTAGCAAAAGA
      |  ||| || |    | |||   |||| | | |||||   |    |||  |   |    ||||   || ||| ||  |     | |||    |     ||||||||| |||||||| || ||  | | |||| | ||||||||||| || ||||| |||||||||||||| || ||||| ||  | ||  | || |||||
------ttgtgtttgatatctacaaactaaagagagattttactgtcccaagaagtatcttttgtttataacttaattgaacttttagttttttttttgctgccagATTTTGGTATGATGGGGGACTTTAGGCCAGAATTACGTGATGGATTCATGGAAGCATGTCTTCATCTTGTAAATCGTGACTTCAAAGCGCTGGCTAAAGA

upper sequence: GRMZM2G305007_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv18s0001g01620.t01 (Vitis vinifera), 3'ss of exon 10
caactttcctgtgtgtttaggaaaaaaag----aagaaaaactttacaaccaattgaatgaagctcaaattattttgattaaa--tgtgacactatttgtcaatagATTTTGGGATGATGGGAGAATTCCGACAAGAACTTCGTGATGGATTTATTGAAGCTTGTCTTCATCTTGTTAACCGTGATTTTGATGCTTTAGCAAAAGA
     || ||||   ||| ||   ||  |     |  |||   ||         ||  ||  |     || || |||    |   | | |||    || |||  ||||||||| |||||||| |||||   || |||||| || ||||||||||||||||| ||||| |||||||| |||||||||| |||||| || || || ||
-----ttactgtcattttgggttcaattgtgttgaccaaactcttgtgtgtgtgtgtgtgt-gtgtgtatcatgttggaccatcttttaacatctcttatcaccagATTTTGGTATGATGGGTGAATTTGAACCAGAACTCCGAGATGGATTTATTGAAGCCTGTCTCCATCTTGTAAACCGTGATTATGATGCATTGGCTAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaattgaatgaagctcaaattattttgattaaatgtgacactatttgtcaatagATTTTGGGATGATGGGAGAATTCCGACAAGAACTTCGTGATGGATTTATTGAAGCTTGTCTTCATCTTGTTAACCGTGATTTTGATGCTTTAGCAAAAGA
                       ttttgat  putative branch site (score: 4)
               tcaaattattttgatt  TA-rich tract