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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgatcgaatatattgggttattcttgaataagtgaattcacatatttcctggtaactgctcactcatttacactatctttccacatttttgtttgccagATATTTTACTTCATTGGATTTGGAATGTTCTGCCTTGAATCACTGCTCAGCATCGTTGTCATTCAG

Basic information

species Zea mays
transcript GRMZM2G169773_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g57220.2 (Oryza sativa), 3'ss of exon 10
----ttgatcgaatatattgggttattcttgaataagtgaattcacatatttcctggtaactgctcactcatttacactatctttccacatttttgtttgccagATATTTTACTTCATTGGATTTGGAATGTTCTGCCTTGAATCACTGCTCAGCATCGTTGTCATTCAG
     |    || |   |   | | | ||| | | | |  |||  ||| | || |   |     | | ||||  ||| | |     |||| |||  || | ||||||||||||||||||||||||||| ||||||||||||||||||| |||||| | |||||||| |||
gggactctgggagttcgtgatgctttgcttaatttatttgattggcatgtctcatacaattgattgagtcatcaacattgtt----cacactttctttcgacagATATTTTACTTCATTGGATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAG

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA13G25460.1 (Glycine max), 3'ss of exon 10
ttgatcgaatatattg-ggttattcttgaat--aagtgaattcacatatttcctggtaactgctcactcatttacactatctttccacatttttgtttgccagATATTTTACTTCATTGGATTTGGAATGTTCTGCCTTGAATCACTGCTCAGCATCGTTGTCATTCAG
 ||    |   | |||    || |   ||||  ||   ||   | || | | ||  | | || |   || ||||   |   ||||  ||||  ||  |   |||| || |||||||||||||||||| |||||||| ||||| |  || |||||||    || ||||||
atgcctcatccttttgcaaatactacagaatgcaacctaagcaatat-tctgcttctgaatgattgatcttttattatgattttctccatt--tgccttgtagATCTTCTACTTCATTGGATTTGGATTGTTCTGCGTTGAAACTTTGATCAGCATTTGGGTTATTCAG

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 11
ttgatcgaatatat-tgggttattcttgaataag-tgaattcacatatttcctggtaactgctc--actcatttacactatctttccacatttttgtttgcca--gATATTTTACTTCATTGGATTTGGAATGTTCTGCCTTGAATCACTGCTCAGCATCGTTGTCATTCAG
       ||  ||  ||  ||   |||| || || |  |        | ||  |   |  |||   |  | |||||   ||   |  |  | ||  |||   |  ||| || ||||||||||| ||||||||||||||  |||||||| |||||||||||   || ||||||
------aaacctaggtgacttgaccttgcatgagatacacatgagggtctctagaatatcgctggaagccttttactggattgattgatttcttcttttattatagATCTTCTACTTCATTGGGTTTGGAATGTTCTGTGTTGAATCAGTGCTCAGCATCTGGGTTATTCAG

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv12s0059g01930.t01 (Vitis vinifera), 3'ss of exon 10
--ttgatcgaatat-attgggttattcttgaataagtgaattcacatatttcctggtaactgctcactcatttacactatctttccacatttt-tgtttgccagATATTTTACTTCATTGGATTTGGAATGTTCTGCCTTGAATCACTGCTCAGCATCGTTGTCATTCAG
  ||||   | ||| ||  ||  |||| ||    ||||  ||    | |||| |  |   |  |     |   |         |  ||| ||  | | |  |||||||| ||| | |||||||||||| ||||||||||||||||||||||||| |||   ||  |||||
ccttgacaaattattatcagg--attcatgg--tagtggctttttttttttcttcttcttttttgtaagaaggattgggatcatttacacttcctatattgcagATATTCTACCTTATTGGATTTGGATTGTTCTGCCTTGAATCACTGCTCAGTATCTGGGTTGTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcctggtaactgctcactcatttacactatctttccacatttttgtttgccagATATTTTACTTCATTGGATTTGGAATGTTCTGCCTTGAATCACTGCTCAGCATCGTTGTCATTCAG
            tgctcac  putative branch site (score: 2)
                               tctttccacattttt  putative PPT
                                        atttttgttt  TA-rich tract