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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgcatctctagcatacactccaatttcgccaaacatgtgttaaaaacatgcatttttaattccttatgaaggtgggtatgattttactcagagtatgcacctaaatgaactcaataatttatttgcatgttggatatatcaaattggcatctgttcagCTTGCGAACAAGTATATGAAGAGGGTTGCATCAGAACTTGATGCGTTGGAAGGCACTGAGAAAGAGCCCAATAGAGAGTTTTTGCTTCTCCAGGGTGGCA

Basic information

species Zea mays
transcript GRMZM2G396927_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G396927_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g01439.2 (Oryza sativa), 3'ss of exon 6
gtgtgcatctctagcatacactccaatttcgccaaacatgtgttaaaaacatgcatttttaattccttatgaaggtgggtatgattttactcagagtatgcacctaaatgaactcaataatttatttgcatgttgg--atatatcaaattggcatctgttcagCTTGCGAACAAGTATATGAAGAGGGTTGCATCAGAACTTGATGCGTTGGAAGGCACTGAGAAAGAGCCCAATAGAGAGTTTTTGCTTCTCCAGGGTGGCA
                                                     ||| | ||    | ||||    | |  |   ||||   |   ||| |||  |  |  | |  |||    | ||   |||||||  ||| ||||||||||||||||||||||| ||||| ||||||||||||||||||||  |||| |||||||| ||| ||||||| |||||||||||||| |||||||                     
------------------------------------------------gttaacatctctag---cctatgtctattgccacctttttggaccatgta-gcaaatctaaaatccaaatttcatcttgttatgttgggaatagATCAAATTGGCATCTGTTCAGCTGGCGAAGAAGTATATGAAGAGGGTTGCCACAGAGCTTGATGCCTTGCAAGGCACCGAGAAAGAGCCCAACAGAGAGT---------------------

upper sequence: GRMZM2G396927_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g01449.1 (Oryza sativa), 3'ss of exon 7
gtgtgcatctctagcatacactccaatttcgccaaacatgtgttaaaaacatgcatttttaattccttatgaaggtgggtatgattttactcagagtatgcacctaaa-tgaactcaataatttatttg--catgttgg--atatatcaaattggcatctgttcagCTTGCGAACAAGTATATGAAGAGGGTTGCATCAGAACTTGATGCGTTGGAAGGCACTGAGAAAGAGCCCAATAGAGAGTTTTTGCTTCTCCAGGGTGGCA
                                               ||||| ||| | ||    ||    |       |   | |||  | |||  ||| |   ||  | || || | | |  || |    |||||||  ||| ||||||||||||||||||||||| ||||| ||||||||||| ||||||||  |||| || ||||| ||| ||||||| |||||||||||||| |||||||                     
--------------------------------------------gttaacatacatctctagcctctatctat------tgccactttgtt-agaccatgtaggaaatctaaaatcgaaattccatcttgttatgttgggaatagATCAAATTGGCATCTGTTCAGCTGGCGAAGAAGTATATGAATAGGGTTGCCACAGAGCTAGATGCCTTGCAAGGCACCGAGAAAGAGCCCAACAGAGAGT---------------------


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgaactcaataatttatttgcatgttggatatatcaaattggcatctgttcagCTTGCGAACAAGTATATGAAGAGGGTTGCATCAGAACTTGATGCGTTGGAAGGCACTGAGAAAGAGCCCAATAGAGAGTTTTTGCTTCTCCAGGGTGGCA
 acctaaa  putative branch site (score: 3)
                                              tctgttc  putative PPT
     actcaataatttattt  TA-rich tract