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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcatgtcatgttgtacattacatgacagaaatacacatcattagccctgtgcgccagttcttgcattagccctgtcgacttcatggttttctaacatttttatgaatctttttgtccagGTGGAGGCGCTTGTCCACCCATTCTTTGACGAGCTTCGAGATCCTAATACTCGTCTTCCAAATGGCCGCTTCCTGCCACCCCTTTTCAACTTCAAGCCTC

Basic information

species Zea mays
transcript GRMZM2G129482_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G129482_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g14860.3 (Oryza sativa), 3'ss of exon 10
gtaagtgcatgtcatgttgtacattacatgacagaaatacacatca-ttagccctgtg-cgcc-agttcttgcattagccctgtcgacttcatggttttctaacatttttatgaatctttttgtccagGTGGAGGCGCTTGTCCACCCATTCTTTGACGAGCTTCGAGATCCTAATACTCGTCTTCCAAATGGCCGCTTCCTGCCACCCCTTTTCAACTTCAAGCCTC
          || |   | || |||  |||   ||| |||| || | ||||   | || | |  ||||| ||   ||    ||  ||| |  |  |||  |||   |||| ||  |   |||| ||||||||| || ||||| |||||||||||||| ||||||||||| |||||| |||| ||||| |||||||||||  |||| || || ||||||||||||||||
----------gtaag--tatatatttaatggttgaagtacagataaattagtattatggcacttagttcctgagataattgtgcagacat--tcatttcataaatattttctgt-tacctttgaccagGTGGAAGCACTTGTTCACCCATTCTTTGATGAGCTTCGAGACCCTAATGCTCGCCTTCCGAATGGCCGCTTTTTGCCTCCTCTCTTCAACTTCAAGCCTC

upper sequence: GRMZM2G129482_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ10962 (Selaginella moellendorffii), 3'ss of exon 10
gtaagtgcatgtcatgttgtacattacatgacagaaatacacatcattagccctgtgcgccagttcttgcattagccctgtcgacttcatggttttctaacatttttatgaatctttttgtccagGTGGAGGCGCTTGTCCACCCATTCTTTGACGAGCTTCGAGATCCTAATACTCGTCTTCCAAATGGCCGCTTCCTGCCACCCCTTTTCAACTTCAAGCCTC
                                                          |  ||||  | |   |     ||| ||||    |    || ||| |  |   |  |  ||    ||| | || |||||||  |||||||||||||| ||| | || |||||||| ||||| ||||||||||| ||    || ||||| || | ||| |||||||   
----------------------------------------------------------gtaagtttctcccaaa---tcgtccactttgaagggccctgacactggtggtatacacttca--cagCTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGGGATCCTAACACTCGACTTCCAAATGGTCGTCCGCTACCACCTCTGTACAATTTCAAGCAAT

upper sequence: GRMZM2G129482_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ04915 (Selaginella moellendorffii), 3'ss of exon 10
gtaagtgcatgtcatgttgtacattacatgacagaaatacacatcattagccctgtgcgccagttcttgcattagccctgtcgacttcatggttttctaacatttttatgaatctttttgtccagGTGGAGGCGCTTGTCCACCCATTCTTTGACGAGCTTCGAGATCCTAATACTCGTCTTCCAAATGGCCGCTTCCTGCCACCCCTTTTCAACTTCAAGCCTC
                                                          |  ||||  | |   |     ||| ||||    |    || ||| |  |   |  |  ||    ||| | || |||||||  |||||||||||||| ||| | || |||||||| ||||| ||||||||||| ||    || ||||| || | ||| |||||||   
----------------------------------------------------------gtaagtttctcccaaa---tcgtccactttgaagagcactgacactggtggtatacacttca--cagCTAGAAGCGCTTGCACACCCATTCTTTGATGAGTTGCGGGATCCTAACACTCGACTTCCAAATGGTCGTCCGCTACCACCTCTGTACAATTTCAAGCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attagccctgtcgacttcatggttttctaacatttttatgaatctttttgtccagGTGGAGGCGCTTGTCCACCCATTCTTTGACGAGCTTCGAGATCCTAATACTCGTCTTCCAAATGGCCGCTTCCTGCCACCCCTTTTCAACTTCAAGCCTC
                        ttctaac  putative branch site (score: 1)
                                          tctttttgtcc  putative PPT
                      ttttctaacattttta  TA-rich tract