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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcagtttcttatgccccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgtgaaatcttgggggacatatgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT

Basic information

species Zea mays
transcript GRMZM2G477336_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G477336_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 19
--tcagtttcttatgccccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgtgaaatcttggggg-acata---tgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT
   | ||||||         |  || |  |   ||     ||    |||||||| |   |||     |  |  |||    |||||||    | ||||    ||||| | || || ||||| ||||||||| | || |||||||| ||||| ||| | ||||||||||||||||| ||||| || || ||||||||||||||  | |
gtactgtttct-ggataattttgccataagagtca---tgttctattttattttttgaattccgcaattcatctataagaaaatcttactagtacatggtttgcagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAATCCTATGAAGGACTATACTTTTTCTTGGGTGCAT

upper sequence: GRMZM2G477336_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 17
--------tcagtttcttatgccccctccccc-tctgtaccaacccattggcatttattttcttccttcttggttctaattattgtgaaa---tcttggggg-acata---tgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT
        | ||    |  |   |  |      | |  |  |     ||  || |||| || ||     ||  || |||||    | |||   ||||    | ||||    ||||| | || || ||||| | ||| ||||| || |||||||| ||||| ||| | |||||||||||||| || ||||| || || ||||||||||||||  | |
gtactgtattagggcttggtagtcggtataatgtttccatgatatttttaacaattatctttttttggtttttttataatttcaataaaagaatcttactagtacatgatttgcagACTGCTAAGGAATATTGTGAACAGCTGGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT

upper sequence: GRMZM2G477336_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 19
tcagtttcttatgccccctccccctctgtaccaacccattggcatttatt----ttcttccttcttgg------ttctaattattgtgaaa---tcttggggga----catatgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT
  | | | ||| | |        |  | ||      |  ||  |||| ||    || |   || ||||      || |||||  | | |||   ||||    |      || ||||| | || || ||||| | ||| ||||| || || ||||| ||||| ||| | |||||||||||||| || ||||| || || ||||||||||||||  | |
gtactgtattagggcttggtagtcggtataatgtttccatgatattttttacaattatatttttttgggtttttttataatttctataaaagaatcttactagtacattatttgcagACTGCCAAGGAATATTGTGAACAGCTCGGTGTAGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCCTATGAAGGACTATACTTTTTCTTGGGTGCAT

upper sequence: GRMZM2G477336_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
--tcagtttcttatgccccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgtgaaatcttggggg-acata---tgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT
   | ||||||  |      |  || |  |   ||     ||    |||||||| |   |||     |  |  |||     ||||||    | ||||    | ||| | || || ||||| ||||||||| | || |||||||| ||||| ||| | ||||| ||||||||||| ||||| ||  | ||||||||||||||  | |
gtactgtttct-gtataatgttgccataagattca---tgttctattttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattttcttccttcttggttctaattattgtgaaatcttgggggacatatgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT
                   ttctaat  putative branch site (score: 2)
                      taattattgtgaaat  TA-rich tract