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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcatatgaatatatcttttttctgcatttctctgctgcatccttgactcaacccttcagttctctatatgatgatgcatacagtattatttctcatgcagTACGCCAGATGGTTATGTTCAGTGCAACATGGCCTCTTGCTGTCCACAAATTAGCCCAGGAGTTTATGGATCCAAATCCGATAAAG

Basic information

species Zea mays
transcript GRMZM2G076484_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G076484_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g20580.1 (Oryza sativa), 3'ss of exon 5
tcatatgaatatatcttttttctgcatttc-tctgctgcatccttgactcaacccttcagt-tctctatatgatgatgcatacagtattatttctcatgcagTACGCCAGATGGTTATGTTCAGTGCAACATGGCCTCTTGCTGTCCACAAATTAGCCCAGGAGTTTATGGATCCAAATCCGATAAAG
 ||| | ||| |  |  |    |  ||||  | || | |  |    | | | |  ||| |  | | | |   |  |||   | |  ||| || ||  ||||||||| |||| ||||||||||||||| |||||||||| |||||||||| |  ||||||| |||||||||||||||||||| ||||||
-catgtcaatttgacactgccatttattttatgtgttactacacctagttatcttttctgaatatatctgcaaccatggccatataattcttcct-gtgcagTACGTCAGACGGTTATGTTCAGTGCTACATGGCCTCCTGCTGTCCACCAGCTAGCCCAAGAGTTTATGGATCCAAATCCAATAAAG

upper sequence: GRMZM2G076484_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT1G31970.1 (Arabidopsis thaliana), 3'ss of exon 5
tcatatgaatatatcttttttct--gcatttctctgctgcatc---cttgactcaacccttcagttctctatatgatgatgcatacagtattatttctcatgcagTACGCCAGATGGTTATGTTCAGTGCAACATGGCCTCTTGCTGTCCACAAATTAGCCCAGGAGTTTATGGATCCAAATCCGATAAAG
 ||  ||  | |  | |||  ||  |||||  | ||      |    ||||   |     | | || |  ||   |       | |  | |||| | || |  ||| || || |||||||||||||||||||| |||||| | | ||| |||||||| |||||||| || |||||||||||||| || |||
gcaggtggtttttacatttcacttagcattcttgtgagaagccaaatttgatatatgtgctaaattgta-atgaaaactcttcttctttcttatctgtcttatagTTCGTCAAATGGTTATGTTCAGTGCAACTTGGCCTTTGGATGTTCACAAATTGGCCCAGGAATTCATGGATCCAAATCCAATCAAG

upper sequence: GRMZM2G076484_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv02s0109g00380.t01 (Vitis vinifera), 3'ss of exon 7
----tcatatgaatatatcttttttctgcatttctctgctgcatccttgactcaacccttcagttctctatatgatgatgcatacagtattatttctcatgcagTACGCCAGATGGTTATGTTCAGTGCAACATGGCCTCTTGCTGTCCACAAATTAGCCCAGGAGTTTATGGATCCAAATCCGATAAAG
        | || |  | ||| | |   ||   |  |  |   | |||  ||      ||  | | |     |   ||| || ||  |   | || |   ||||  ||||| ||||| ||||| |||||||||||||||||  |||| ||  ||||||| || || ||||||||||| || ||  | |||
acatctgcaagatttgaccttctgttctcaagccagttataattgcttctctggcatattttgatgtg-gcttagggattcaaactcttaaaatttt---gcagCTCGCCAAATGGTAATGTTTAGTGCAACATGGCCTCTACCTGTTCATCAATTAGCTCAAGAATTTATGGATCCCAACCCAGTTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actcaacccttcagttctctatatgatgatgcatacagtattatttctcatgcagTACGCCAGATGGTTATGTTCAGTGCAACATGGCCTCTTGCTGTCCACAAATTAGCCCAGGAGTTTATGGATCCAAATCCGATAAAG
 ccttgac  putative branch site (score: 4)
                                        ttatttctc  putative PPT
                                atacagtattattt  TA-rich tract