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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttatgagttatttaatccgttctgaggactaaagtttagtcactgaacttatttgcttgctttctctatagacgaattataacccctgctgctctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAG

Basic information

species Zea mays
transcript GRMZM2G168614_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G168614_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os09g37590.1 (Oryza sativa), 3'ss of exon 7
--cttatgagttatttaatccgttctgaggactaaagtttagtcactgaacttatttgcttgctttctctat-agacgaattataacccctgctgctctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAG
  | |   ||| ||   ||  |||||    | | |  |  |     | |     | || ||  ||||  ||| |||   || || ||  |||||  | ||||||||||||||||||| || |||||||| || || ||||| || |||||||||||| || ||||||||| |||||||||||||||||||||
agcattgcagtaatgccatg-gttctac--atttatttggaactcttaagtagttatgttttttttccatattagatatatcatgacatctgcttatttctagATAGTTGATGCTGTTGTCGCTGCACGCATTTTAAATGCAACGCTTGTTGTTCCCGAATTGGATCAAAGATCTTTCTGGAAAGATTCAAG

upper sequence: GRMZM2G168614_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G48050.1 (Glycine max), 3'ss of exon 3
------cttatgagttatttaatccgttctgaggactaaagtttagtcactgaacttatttgcttgctttctctatagacgaattataacccctgctgct-ctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAG
         |||| ||  |||||         | ||   |  |  |||| |   ||  |   ||   |      | |||| |||||  |     | ||   ||  ||||| |||||||||| || ||||||  | | ||||||||||| |||||||||||  |  ||||||| |||||||||||||| ||  ||||
gcaaccaacatgaatttattaat------aatgtacctgaaatatgtca-tatgctattgctctaaatccaaggagagaccaattaatatgggagttgtggctgcagATAATTGATGCTGTGGTGGCTGCATATCTTTTGAATGCTACTCTTGTTGTTCCAGAGTTGGATCATACATCTTTCTGGAAGGACACAAG

upper sequence: GRMZM2G168614_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G02110.1 (Glycine max), 3'ss of exon 3
cttatgagttatttaatccgttctgaggactaaagtttagtcactgaacttatttgcttgcttt-ctctatagacgaattat--aacccctgctgctctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAG
   ||     |          | |||  |||   |||   |  |  ||  ||| | | | || | || |  |  | |||  |       ||||  ||  | ||||    |||||||| |||||||| || || ||||||||||| ||||| ||||| ||| ||||||||  ||||||||||||||| || ||
aagatagagaacactgcagtatatgataactgttgttggattgc--aaactatctccatactctgctattaatgccaatctttgggtttctgcaactggc-agATTACAGATGCTGTTGTTGCTGCGCGAATTTTGAATGCTACTCTTGTAGTTCCAAAATTGGATCAACGATCTTTCTGGAAAGACTCTAG

upper sequence: GRMZM2G168614_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G02010.1 (Glycine max), 3'ss of exon 4
cttatgagttatttaatccgt-tctgaggactaaagtttagtcactgaacttatttgcttgctttctctatagacgaattataacccctgctgctctc--tagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAG
 | | ||   |      | || | |||  |||   ||| | |  |  ||  ||| ||| | ||       ||     | | |  |   | ||||  |    ||||    |||||||| ||||||||||| || ||||||||||| ||||| ||||| ||| ||||||||  |||||||||||||||||| ||
-tcaagatagaacactgcagtatatgataactgtcgttgaattgc--aaactatctgcatactcggctattaatgccaatctttctgtttctgcatttggcagATTACGGATGCTGTTGTTGCTGCACGAATTTTGAATGCTACTCTTGTGGTTCCAAAATTGGATCAACGATCTTTCTGGAAAGATTCTAG

upper sequence: GRMZM2G168614_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G00520.1 (Glycine max), 3'ss of exon 3
-cttatgag-ttatttaat-ccgttctgaggactaaagtttagtcactgaacttatttgcttgctttctctatagacgaattataacccctgctgctc--tctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAG
 ||   | |  |||   |  ||  | | |  | | |  |||||  |    ||  |||||  ||   |    |  |   | ||||    |  | |  |   |  |||||||||||||||| || ||||||  | | ||||||||||| |||||||||||  |  ||||||| || ||||||||||||||  | ||
tctggcggggctatcagacaccaatataataagtga--tttagggat---acaaatttgagtgacatgaagaaggctaatttatgtagctggattattgatgcagATAGTTGATGCTGTGGTGGCTGCATATCTTTTGAATGCTACCCTTGTTGTTCCAGAGTTGGATCATACTTCTTTCTGGAAAGACACCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaacttatttgcttgctttctctatagacgaattataacccctgctgctctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAG
                                ttataac  putative branch site (score: 2)
                                      cccctgctgctctct  CT-rich tract
                              aattataa  TA-rich tract