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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagcccaccaagtgaataacccgaagcatgctaggtgattcagcgcttcagcacttcagcaccatcatctaatgtctctcattatgcaagACAAGTTCCACTCCTTCCACTCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTA

Basic information

species Zea mays
transcript GRMZM2G145638_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G145638_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g09250.1 (Oryza sativa), 3'ss of exon 8
gtaagagccc------accaag--tgaataacccgaagcatgctaggtgatt--cagcgcttcagc------acttcagcac--catcatctaatgtctctcattatgcaagACAAGTTCCACTCCTTCCACTCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTA
|||||||  |      ||  ||    | | || |   || ||||  |  |||  || |  ||  ||      | || |  |     |  | | |  | |     | |||| || |||||||| ||||||||  | ||||| |||||||| |||||||||||||||||||| || 
gtaagagttctgatggactgagatcaattgactctctgc-tgctctgcaattgccaccctttttgccagcaaaattgactatgttgttgtttcacttgttatcctgtgcagGAGAAGTTCCATTCCTTCCATCCAGTGGCTACCATCCTGAGCTACCTCACCAAGGCACCCCTT

upper sequence: GRMZM2G145638_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g09250.2 (Oryza sativa), 3'ss of exon 8
gtaagagccc------accaag--tgaataacccgaagcatgctaggtgatt--cagcgcttcagc------actt--cagcaccatcatctaatgtctctcattatgcaagACAAGTTCCACTCCTTCCACTCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTA--------------------
|||||||  |      ||  ||    | | || |   || ||||  |  |||  || |  ||  ||      | ||  |       |  | | |  | |     | |||| || |||||||| ||||||||  | ||||| |||||||| |||||||||||||||||||| ||                     
gtaagagttctgatggactgagatcaattgactctctgc-tgctctgcaattgccaccctttttgccagcaaaattgactatgttgttgtttcacttgttatcctgtgcagGAGAAGTTCCATTCCTTCCATCCAGTGGCTACCATCCTGAGCTACCTCACCAAGGCACCCCTTGTGAGTGCATACATGCATCT

upper sequence: GRMZM2G145638_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT4G39800.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagagcccaccaagtgaataacccgaagcatgctaggtgattcagcgcttcagcacttcagcaccatcatctaatgtctctcattatgcaagACAAGTTCCACTCCTTCCACTCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTA-------------------------------------
      |  |  || ||  | |   |     ||  | |||  |         | | ||  | |        | |     |     ||  ||| |  ||||| ||||| |||||  | ||||||||||| || |||||||||||||||||||||||                                      
------gttcgtca-gttcacagtacatgttattttgggttctctgttttcactgaaccgcggttttgatgttttgaaacatctttttggcagGGAAAGTTTCACTCTTTCCATCCTGTGGCCACCATACTCAGCTACCTCACCAAGGCACCACTTGTACCGCCGGGAACTCCGGTGATTAACGCACTGTCGA

upper sequence: GRMZM2G145638_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 3'ss of exon 8
gtaagagcccaccaagtgaataacccgaagcatgctaggtgattcagcgcttcagcacttca-gcaccatcatctaatgtctctcattatgcaagACAAGTTCCACTCCTTCCACTCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTA
       |        |    | ||  | |    |    || ||  |   || | ||   || | |        ||   | |   ||| |||| |||||||| || ||||||||| | || ||||||||||| || |||||||||||||| || || 
-----gtctgttttcttctgcatccttatgggaccctcttgctttggt-ttttaccatcacatggaatgattcataggatgttcaattttgcagGACAAGTTTCATTCCTTCCACCCAGTTGCCACCATCCTCAGTTACCTCACCAAGGCCCCTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattcagcgcttcagcacttcagcaccatcatctaatgtctctcattatgcaagACAAGTTCCACTCCTTCCACTCGGTGGCCACCATCCTTAGCTACCTCACCAAGGCACCACTA
                               atctaat  putative branch site (score: 3)
                                       tctctcatt  CT-rich tract
                               atctaat  TA-rich tract