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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattctgcttcctcatgcgcaggaggttgatctcaggagctctgatgtttcgagtgattcccgtgcaaaggtaagctgaatgatatcgagatcatagagttacgctcagttgttgttatcagtgacagatgtggcttactccttgttattagGTGACTGATACTTCATACCGAGCAATCATACCAGAGATCGTTGACGTTCTCAGAACTGTTTGTGAGACGCACAAACTGCCACTGGCCCAGACGTGGATAC

Basic information

species Zea mays
transcript GRMZM2G109509_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109509_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g03900.1 (Oryza sativa), 3'ss of exon 2
gtaagattctgcttcctcatgcgcaggaggttgatctcaggagctctgatgtttcgagtgattcccgtgcaaaggtaagctgaatgatatcga-gatcatagagttacgctcagttgttgttatcagtgacagatgtggcttactccttgttattagGTGACTGATACTTCATACCGAGCAATCATACCAGAGATCGTTGACGTTCTCAGAACTGTTTGTGAGACGCACAAACTGCCACTGGCCCAGACGTGGATAC
                                                                          || || |||| |||||  | ||||| || | |  ||| |  ||||||| ||||| |||||||  ||   ||   || |   ||||   |||| |||| ||||||||||| ||||| |||||| | || ||||||||| |||||||||| || ||||| |||||||| |||||||| |||||||
--------------------------------------------------------------------------gtgagatgaaagatattaaagatcagagtgctttgctgaaatgttgttctcagtaacagatgctgcccgct---tgatgccagGTTGTTGATGCTTCTTACCGAGCAATTATACCTGAGATCATGGATGTTCTCAGAGCTGTTTGTGATACCCACAATCTGCCACTAGCCCAGACATGGATAC

upper sequence: GRMZM2G109509_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g03900.1 (Oryza sativa), 3'ss of exon 1
gtaagattctgcttcctcatgcgcaggaggttgatctcaggagctctgatgtttcgagtgattcccgtgcaaaggtaagctgaatgatatcgagatcatagagttacgctcagttgttgttatcagtgacagatgtggcttactccttgttattagGTGACTGATACTTCATACC--GAGCAATCATACCAGAGATCGTTGACGTTCTCAGAACTGTTTGTGAGACGCACAAACTGCCACTGGCCCAGACGTGGATAC
                                                              | | | ||| |   || |   |   ||   |     |  | ||   ||   ||| ||| |||  || |  |       |||   | ||    |  || | |  | || ||  |  ||||  | ||     |  |  |   |||||  ||                                               
-------------------------------------------------------------ctgctgggcacac-caatccccaaagtaataaatcttttcacttctcctaccttggtgtcatccttgtcttaataaaactacatttcgtggaaaattg-cagGAAGTTGATCTCAGGAGCTCTGATGTTTCAAGTGATCCTCGTTCCAAG-----------------------------------------------


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttacgctcagttgttgttatcagtgacagatgtggcttactccttgttattagGTGACTGATACTTCATACCGAGCAATCATACCAGAGATCGTTGACGTTCTCAGAACTGTTTGTGAGACGCACAAACTGCCACTGGCCCAGACGTGGATAC
                                   ggcttac  putative branch site (score: 3)
                                     cttactcctt  CT-rich tract
                                             ttgttatta  TA-rich tract