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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaaacgaattcttatattcaccaatgaagatgatccttttggtactattacaggagcagtgaaaactgatatgattaggacaacacttcaacgtgcaaaggcaattcttctatttaaaactgcatgctgccagcacatctcaaaatgtttttgtcctttttttaccataacaatacttttttttctccagGATGCACAAGATCTTGGCCTGTCTATTGAACTTCTTCCACTGAGCCCGCCTGATGACCAGTTCAACATGTCCCTGTTTTATGCA

Basic information

species Zea mays
transcript GRMZM2G414496_T05
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G414496_T05 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os07g08729.1 (Oryza sativa), 3'ss of exon 6
gtgagtaaacgaattcttatattcaccaatgaagatgatccttttggtactattacaggagcagtgaaaactgatatgattaggacaacacttcaacgtgcaaaggcaattcttctatttaaaactgcatgctgccagcacatctcaaaatgttttt-gtcctttttttaccat-aacaatac-ttttttttctccagGATGCACAAGATCTTGGCCTGTCTATTGAACTTCTTCCACTGAGCCCGCCTGATGACCAGTTCAACATGTCCCTGTTTTATGCA
                                                                                         |   | | |   | ||  |  | ||| ||||    ||| ||     || || | |     ||||| || ||    ||| || ||| ||   |   || | || || |||||||||||||||||||||||||| ||||||||||||||  ||||   ||| |||||  ||||||||||||||||||||||||||
---------------------------------------------------------------------------------------gtatgcctatg---acagatatatgttcaatttcgtgctgaatcacaacaacatacc-----atgttcttagtggcctttgtatcattaattgtctattgtcttcctacagGATGCACAAGATCTTGGCCTGTCCATTGAACTTCTTCCTTTGAGTAGGCCCGATGAGGAGTTCAACATGTCCCTGTTTTATGCA

upper sequence: GRMZM2G414496_T05 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os07g08729.1 (Oryza sativa), 3'ss of exon 5
gtgagtaaacgaattcttatattcaccaatgaagatgatccttttggtactattacaggagcagtgaaaactgatatgattaggacaacacttcaacgtgcaaaggcaattcttctatttaaaactgcatgctgccagcacatctcaaaatgtttttgtcctttttttaccataacaatacttttttttctccagGATGCACAAGATCTTGGCCTGTCTATTGAACTTCTTCCACTGAGCCCGCCTGATGACCAGTTCAACATGTCCCTGTTTTATGCA
                                                         |  ||| |    ||   |   ||||     | |  |  | | | | |   || |  | ||  | ||    ||| ||||  |    | |  ||||  ||  |  || |    ||  | |  |  |   || || |           |||||   |  |  | |  ||  |||     || |   | |  | | |||   |   | | |  |            
---------------------------------------------------------gatgcattttgcaccatttgcattatactga-atgttgatgaggatatttaaatactttaagtgaatgaacattctgctggtggttttataaattcttcagATCTGTGAAGACTGTGAGTAAGCGGATTGTTATATTCACCAACGAAGAT---GATCCTTTTGGTGGTCTT-----ACAGGAGCAG--TAAAGACTGATATGATAAGGACA-----------

upper sequence: GRMZM2G414496_T05 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA20G39280.1 (Glycine max), 3'ss of exon 6
gtgagtaaacgaattcttatattcaccaatgaagatgatccttttggtactattacaggagcagtgaaaactgatatgattaggacaacacttcaacgtgcaaaggcaattcttctatttaaaactgcatgctgccagcacatctcaaaatgtttttgtcctttttttaccataacaatacttttttttctccagGATGCACAAGATCTTGGCCTGTCTATTGAACTTCTTCCACTGAGCCCGCCTGATGACCAGTTCAACATGTCCCTGTTTTATGCA
                                                                                             |||  || | | | | ||  | |||   | |     |    |||  | |  |  ||   |  | ||      || |  || ||  |  |||  ||| |  |||||||||| ||||||||| | |||||||||||||||||  |||| |  ||||||||   ||||||  | || |  || ||||| 
-----------------------------------------------------------------------------------------gtaccaatttgtatatg-atttagtttatagtatagatggtaaaacca-tagagtttgaaggatgctagtag----ttcataattacttttttttggtttgtgaagGATGCACAGGATCTTGGCATTTCTATTGAACTTCTTCCCTTGAGTCACCCTGATGAGGTGTTCAATGTATCTCAATTCTATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catctcaaaatgtttttgtcctttttttaccataacaatacttttttttctccagGATGCACAAGATCTTGGCCTGTCTATTGAACTTCTTCCACTGAGCCCGCCTGATGACCAGTTCAACATGTCCCTGTTTTATGCA
                             ccataac  putative branch site (score: 3)
                                      tacttttttttctcc  putative PPT
                     tttttttaccataaca  TA-rich tract