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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttttattgctaaaatttccttttaatagctgggctagcagtttcatgctttagatgattattatgtctcttgttttcaagtctgcccatcaacagggattactttaatctgtatttggtgcctgcagCTAAAAGAAATAAATTCGAGATTGGATAAAATAGAACCAAAGGTTCGATCATCTGATACAGCAATGCAGTATAAGGCTGTAGAGTCTAGATCTGTTAGTG

Basic information

species Zea mays
transcript GRMZM2G052078_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G052078_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g42840.1 (Oryza sativa), 3'ss of exon 4
gtacttttattgctaaaatttccttttaatagctgggctagcagtttcatgctttagatgattattatgtctct-tgttttc----aagtctgcccatca-acagggattactttaatctg---tatttggtgcctgcagCTAAAAGAAATAAATTCGAGATTGGATAAAATAGAACCAAAGGTTCGATCATCTGATA-CAGCA--ATGCAGTATAAGGCTGTAGAGTCTAGATCTGTTAGTG
                                        ||| |  ||||  |        | |||||  ||  ||||||     || |  |   |  |      ||||||  |||||||   |||||| || |  |||||||  || |||||||| |||||||| | |||||||||||||||||   ||||||||   |  |  ||||| ||||||||||| || |||||||||||||   
----------------------------------------gcattaccatggatggttgagctcttatgggtccatgtttttgaagaaatgcgaggagtatgtgtagattaccctaatctgttttatttgatgtccacagCTAAGGGAGATAAATTCAAGATTGGAAAGAATAGAACCAAAGGTTCCCACATCTGATGGTAATATCATGCAATATAAGGCTGTCGAATCTAGATCTGTTA---
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|148963773|gb|EE014859.2|EE014859
EST:     GATCACAATTTCATGAAGAGTTGCAGCGCCATAATCTGCCTTCATATATG                         CTAAAAGAAATAAATTCGAGATTGGATAAAATAGAACCAAAGGTTCGATCA
genomic: GATCACAATTTCATGAAGAGTTGCAGCGCCATAATCTGCCTTCATATATGgtacttttat ... gtgcctgcagCTAAAAGAAATAAATTCGAGATTGGATAAAATAGAACCAAAGGTTCGATCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcaagtctgcccatcaacagggattactttaatctgtatttggtgcctgcagCTAAAAGAAATAAATTCGAGATTGGATAAAATAGAACCAAAGGTTCGATCATCTGATACAGCAATGCAGTATAAGGCTGTAGAGTCTAGATCTGTTAGTG
                             ctttaat  putative branch site (score: 4)
                              tttaatctgtattt  TA-rich tract