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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttttttcaagtatatatggatcaaacatgatattttttatgtttttcaactggaatttcacacagtaccatttttctatctgatagctagaagttttgtagGTTATGAGTGTAAGAGCTCTTGGAATTGCCTTGAAGCTAACATTCTCAGGAACAAATCAATTATTCTATCCTCAGACTTGGGCCTTTGCAGTAATTGTAG

Basic information

species Zea mays
transcript GRMZM2G104147_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104147_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os11g09140.2 (Oryza sativa), 3'ss of exon 5
gtatgttttttttcaagtatatatggatcaaacatgat--attttttatgtttttcaactggaatttcacacagtaccatttttctatctgatagctagaagttttgtagGTTATGAGTGTAAGAGCTCTTGGAATTGCCTTGAAGCTAACATTCTCAGGAACAAATCAATTATTCTATCCTCAGACTTGGGCCTTTGCAGTAATTGTAG
||| | ||  | || |  |||||||   ||| ||| ||  ||||| |   |||||| ||||   |||||   |    |  | ||||||||||| |  |||| |||   |||| |||||||||| |||||| || ||||| |||||| ||||||||||||||   || || ||||||||||||||||| ||||| |||||  |||||||||
gtacgcttcctgtccaa-atatatgacccaatcataatcaattttgttgttttttctactgttgtttcaactaaattccatgttctatctgatggtgagaa-tttaacagGTGATGAGTGTAAAAGCTCTCGGCATTGCATTGAAGTTAACATTCTCAGGAGTGAACCAGTTATTCTATCCTCAGACATGGGCTTTTGCCCTAATTGTAG

upper sequence: GRMZM2G104147_T03 (Zea mays), 3'ss of exon 5
lower sequence: AT1G71900.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgttttttttcaagtatatatggatcaaacatgatattttttatgtttttcaactggaatttcacacagtaccatttttct--atctgatagc-tagaagttttg--tagGTTATGAGTGTAAGAGCTCTTGGAATTGCCTTGAAGCTAACATTCTCAGGAACAAATCAATTATTCTATCCTCAGACTTGGGCCTTTGCAGTAATTGTAG
||||||  |||||   ||||       || |   ||  ||  ||||| | |||  |   |||| |       | ||| ||| |   |  |||||   |  || || ||   |||| |||||||||| ||| |||||||| || || ||||| || || |||||||||||||| ||||| |||||||| || |||   ||  |  |  | ||| 
gtatgtagttttt--ggtat------ttccagtttgtaatcctttatttctttaga--agaatgttg----attccactttgcctaaattgatattgtcaaacttgtgaacagGTAATGAGTGTAAAAGCACTTGGAATAGCATTAAAGCTGACCTTTTCAGGAACAAATCAGTTATTTTATCCTCAAACATGGATATTCACCTTGGTCGTAC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caactggaatttcacacagtaccatttttctatctgatagctagaagttttgtagGTTATGAGTGTAAGAGCTCTTGGAATTGCCTTGAAGCTAACATTCTCAGGAACAAATCAATTATTCTATCCTCAGACTTGGGCCTTTGCAGTAATTGTAG
                               atctgat  putative branch site (score: 4)
                       atttttctat  TA-rich tract