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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgcctacattttatctgaagaatagggaaataatgcgactatattcctacattgaccggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTAGGACTAC

Basic information

species Zea mays
transcript GRMZM2G418005_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G418005_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
ctgcctacattttatctgaagaatagggaaataatgcga---ctatattcctacattgaccggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTAGGACTAC
  |  | |  || |    || | ||    ||| ||||       ||||| |||  |||| |  || ||  | || |||| |  | |||||||    ||||||||||||||||||||||| |||||||| || |||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| |||||| |||||||
--gtgtcctattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcatgaaa-acctcattcttccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC

upper sequence: GRMZM2G418005_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G23790.4 (Glycine max), 3'ss of exon 4
ctgcctacattttatctgaagaatagggaaataatgcgactatattcctacattgaccggtactttgtgtaacatggagcatctcattccc--atttct-cagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTAGGACTAC
 | ||||  || | |    |   |  |    |  | | | |   ||  ||  ||| |   ||||   | |  |||      ||  | || |  ||||||  ||| ||| |||||||||| ||||||||||||||||| ||||||||||| || ||||| |||||||| |||||||||||||| ||||| || ||| | || ||
-tccctaagttctgttatgatcctttgttgttgttactattcc-tttttaagttg-caattactaattttgccatcctctttcctaatctcttatttctatagGTTATAGTGGTGATGTTTGGTTCCCACAGCCAGCTCCAAAGGATCATCCATGGCGTTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCAC

upper sequence: GRMZM2G418005_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G01200.1 (Glycine max), 3'ss of exon 4
--ctgcctacatttt-atctgaagaatagggaaataatgcgactatattcctacattgaccggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTAGGACTAC
   ||   | |||   |||| |    |   ||  |        | ||   |  |||||     |  ||| | |  | |     || || |    | |    ||| |||||||||||||| |||  |  ||| ||||| |||||||| || || |||||||||||||| |||||||||||||| ||||| || ||| | || ||
gtttgttcatattcccatctaagttgttcagaggtggcaaagttttacatcatcattgctaattgttttcttttcctttccaaatttctt---aaatctatagGCTATGGTGGTGATGTTTGGCCCATACAACCAGCTCCAAAGGACCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCAC

upper sequence: GRMZM2G418005_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G01210.4 (Glycine max), 3'ss of exon 4
--ctgcctacattttatctgaagaatagggaaataatgcgactatattcctacattg--accggtactttgtgtaacatggagcatctcattcccatttct-cagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTAGGACTAC
  |||     ||  | | |      | ||    |  | | | |   ||  ||  |||  |  | || ||| | | |               ||  ||||||  ||| ||| |||||||||| ||||||||||| ||||| ||||||||||| || |||||||||||||| |||||||||||||| ||||| || ||| | || ||
ttctgttatgatccttttttt----ttggttgttgttactattcc-tttttaagttgcaattgctaatttttttcatcctctttccaaatctcttatttctatagGTTATAGTGGTGATGTTTGGTTCCCACAACCAGCTCCAAAGGATCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGTACCAC

upper sequence: GRMZM2G418005_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv14s0066g01320.t01 (Vitis vinifera), 3'ss of exon 4
-----ctgcctacatttt---atctgaagaatagggaaataatgcgactatattcctacattgaccggtactttgtgtaacatggagcatctca--ttcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTAGGACTAC
      |  |  || |||    | |   | ||  |   ||  ||   | || || ||   ||   | ||  |    |  |       ||| | |  || |   || ||||| ||  |||| ||||| ||||  ||||||||||| || ||||| || || ||||| |||||||| ||||| || ||||||||||| || ||| | || ||
gtaatgtttcagcacttttgagtttcttggatttgagtatgttgtt-caatgtttct-ttttatgcagttttgaaagccaatgacttcattttaattttctgattttcagGTTACAGTGGGGATGTTTGGTATCCACAGCCAGCCCCCAAGGACCATCCATGGCGGTACATGCCAAACCAAGCTATGACCCCTCATATTTCTGGCACCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctacattgaccggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTAGGACTAC
                     gtgtaac  putative branch site (score: 3)
                                    tctcattcccatttct  putative PPT