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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcctgttcagtttcttatgcccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgggaaatcttgggggacatatgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT

Basic information

species Zea mays
transcript GRMZM2G352837_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G352837_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 19
gtattcctgttcagtttcttatgcccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgggaaatcttggggg-acata---tgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT
        || | ||||||        |  || |  |   ||     ||    |||||||| |   |||     |  |  |||  | |||||||    | ||||    ||||| | || || ||||| ||||||||| | || |||||||| ||||| ||| | ||||||||||||||||| ||||| || || ||||||||||||||  | |
--------gtactgtttctggataattttgccataagagtca---tgttctattttattttttgaattccgcaattcatctataagaaaatcttactagtacatggtttgcagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAATCCTATGAAGGACTATACTTTTTCTTGGGTGCAT

upper sequence: GRMZM2G352837_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 17
-----gtattcctgttcagt--ttcttatgcccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgggaaatcttgggggac-atatgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT
     |||||   | |  ||  |   |||     | ||    | |    | | |||  | ||| |||  ||  ||  |  ||  ||| |  |     |  | |   |  || ||||| | || || ||||| | ||| ||||| || |||||||| ||||| ||| | |||||||||||||| || ||||| || || ||||||||||||||  | |
gtactgtattagggcttggtagtcggtataatgtttccatgatatttttaacaattatc-tttttttggtttttttataatttcaataaaagaatcttactagtacatgatttgcagACTGCTAAGGAATATTGTGAACAGCTGGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT

upper sequence: GRMZM2G352837_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
-----gtattcctgttcagt--ttcttatgcccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgggaaatcttgggggac-atatgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT
     |||||   | |  ||  |   |||     | ||    | |      | |||    ||| ||   ||  ||  |  ||   || |  |     |  | |   |  || ||||| | || || ||||| | ||| ||||| || || ||||| ||||| ||| | |||||||||||||| || ||||| || || ||||||||||||||  | |
gtactgtattagggcttggtagtcggtataatgtttccatgatattttttacaattatatttttttgggtttttttataatttctataaaagaatcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT

upper sequence: GRMZM2G352837_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
gtattcctgttcagtttct-tatgcccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgggaaatcttggggg-acata---tgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT
        || | |||||| |||     | ||      | |     |  |    |||||||| |   |||     |  |  |||  |  ||||||    | ||||    | ||| | || || ||||| ||||||||| | || |||||||| ||||| ||| | ||||| ||||||||||| ||||| ||  | ||||||||||||||  | |
--------gtactgtttctgtataatgttgccataagattcatgttctat----tttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattttcttccttcttggttctaattattgggaaatcttgggggacatatgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT
                   ttctaat  putative branch site (score: 2)
                   ttctaattatt  TA-rich tract