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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttggaccttttcctctcttaatataatgacgtgtagtcctcccgcgcgttcgagaaaaaaaaatttctgatgatctgacctgaatttcattgcctgcagGATATGGCTGGATTAATAAGCAAGATAAATCGGTCTTCCATGGGTCCTTTGCCTGCCTGTTACTCAGTGTCTAT

Basic information

species Zea mays
transcript GRMZM2G137118_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G137118_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os05g36960.1 (Oryza sativa), 3'ss of exon 10
---cttggaccttttcctctcttaatataatgacgtgtagtcctcccgcgcgttcgagaaaaaaaaatttctgatgatctgacctgaattt-cattgcctgcagGATATGGCTGGATTAATAAGCAAGATAAATCGGTCTTCCATGGGTCCTTTGCCTGCCTGTTACTCAGTGTCTAT
     |||| | ||     ||||  | |  |       | | || |     ||    |      || |||| | |||||| |  |||||   || | ||||||||||||||||||||||||||| ||||||||| |||| ||||| || || |||||||||||||||||    |||||
aaatatggaacattggaattcttg-tgtgctatttaacaatgctactatttgtatttgccttttaagtttcag-tgatctta--tgaatcaacaatacctgcagGATATGGCTGGATTAATAAGTAAGATAAATAGGTCCTCCATTGGCCCCTTGCCTGCCTGTTACTCTTCTTCTAT

upper sequence: GRMZM2G137118_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA13G38980.1 (Glycine max), 3'ss of exon 10
-cttggaccttttcctctcttaatataatgacgtgta-gtcctcccgcgcgttcgagaaaaaaaaatttctgatgatctgacctgaatttcattgcctgcagGATATGGCTGGATTAATAAGCAAGATAAATCGGTCTTCCATGGGTCCTTTGCCTGCCTGTTACTCAGTGTCTAT
  |  | ||  |  ||  | | ||||| | | || |  |         ||  |     |  |    |||    ||||  |    | || || |||  | ||||||||||| || || |||||||||||||| || || || || || ||||||||| ||||||| ||    ||| |
gttgtggcccctatcttgcctgatatatttatgtatgtgaatgtgaaggcaatttttcatcatcttttttccttgataagtgtcgtatatc-ttgttt-cagGATATGGCAGGGTTGATAAGCAAGATAAACCGTTCCTCTATTGGCCCTTTGCCTCCCTGTTATTCCCCATCTTT

upper sequence: GRMZM2G137118_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 10
cttggaccttttcctctcttaatataatgacgtgtag-tcctcccgcgcgttcgagaaaaaaaaatttc-tgatgatctgacctga-atttcattgcctgcagGATATGGCTGGATTAATAAGCAAGATAAATCGGTCTTCCATGGGTCCTTTGCCTGCCTGTTACTCAGTGTCTAT
  | ||  |     | | |   ||||   | ||| || |  | | ||| | |  |          |||   |||||  || | | |    ||||    | ||||||||||| ||| | ||||||||||||||||| || ||||| || ||||||||| | ||||| ||    ||  |
--tagatatagatatttat-gttatatgtatgtggaggtatttcagcgtggtttatttcttgggttttaacgatgagatggcataatgaatcatatgtttcagGATATGGCAGGACTGATAAGCAAGATAAATCGTTCATCCATTGGCCCTTTGCCTCCATGTTATTCCCCTTCCTT

upper sequence: GRMZM2G137118_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA12G31330.1 (Glycine max), 3'ss of exon 10
cttggaccttttcctctcttaatataatgacgtgtagtcctcccgcgcgttcgagaaaaaaaaatttctgatgatct-gacctgaatttcattgcctg---cagGATATGGCTGGATTAATAAGCAAGATAAATCGGTCTTCCATGGGTCCTTTGCCTGCCTGTTACTCAGTGTCTAT
      | | ||     |  ||| |  |    | || |  |   | | || | |      |   | | |  |  ||| ||   | ||   |   | ||   ||||||||||| || || |||||||||||||| || || || || || ||||||||| ||||||| ||    ||| |
---aagcttgttgtggccccaatttggtctgatatattgatat-gtgtgtgcaatttgtcatcttgtttttttttcttgataagcatggtaaatcttgtttcagGATATGGCAGGGTTGATAAGCAAGATAAACCGTTCCTCTATTGGCCCTTTGCCTCCCTGTTATTCCCCATCTTT

upper sequence: GRMZM2G137118_T01 (Zea mays), 3'ss of exon 11
lower sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 10
---cttggaccttttcctctcttaatataatgacgtgtagtcctcccgcgcgttcgagaaaaaaaaatttctgatgatctgacctgaatttcattgcctgcagGATATGGCTGGATTAATAAGCAAGATAAATCGGTCTTCCATGGGTCCTTTGCCTGCCTGTTACTCAGTGTCTAT
    |  ||  ||    | |  | |   ||  | |  |  |    | |     || |    |      |||| |  ||  |   |  |  ||  ||  | ||||||||||||||||||||||| || ||||| || ||||| || |||||||||||  | || || ||    ||| |
tatatgtgattttaatttgttatcacccaaatatgaattctgaaactgtttactccattttatttgtattctaac-attggcattctacatc--tggtttcagGATATGGCTGGATTAATAAGTAAAATAAACCGTTCTTCTATTGGTCCTTTGCCCTCATGCTATTCCCCTTCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcgttcgagaaaaaaaaatttctgatgatctgacctgaatttcattgcctgcagGATATGGCTGGATTAATAAGCAAGATAAATCGGTCTTCCATGGGTCCTTTGCCTGCCTGTTACTCAGTGTCTAT
                            atctgac  putative branch site (score: 3)
                                        tttcatt  putative PPT
          aaaaaaaaatttctga  TA-rich tract