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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagagtttttccaaacaccaattggattattctttccttatttaattcttgttctgttccaattttgttcttctgctgcattctgaatgagactgatgttttcagATACTGAGACCAAGAATGGCTGGAAACAAAATTATGGGAATGATAACAGAGCCATATAGGCTGACACGGCGATGTGAAGTGACTGCAATTCTTATTCTGT

Basic information

species Zea mays
transcript GRMZM2G017845_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017845_T04 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g08400.1 (Oryza sativa), 3'ss of exon 9
gtgagagtttttccaaacaccaattggattattctttcctta--tttaattcttgttctgttccaattttgttct-tctgctgcattctgaatgag-------actgatgtt------ttcagATACTG---AGACCAAGAATGGCTGGAAACAAAATTATGGGAATGATAACAGAGCCATATAGGCTGACACGGCGATGTGAAGTGACTGCAATTCTTATTCTGT
||||||  | |||  | ||  |  || ||   ||||| | ||  || ||||||  |||  ||  | |  | | || | | |||  |||||| ||||       | | || ||      || ||||| ||   |||||||||||||||||||| ||| |||||| ||||||||| |||||||||||| |||| || ||||||||||||||||||||||| ||||   
gtgagaactattctgagcatgagatgaatggatcttttcataatttaaattctatttcaattgtattggtctgctgtgttctgacttctgactgagttccagcatttatttttaatattttagATATTGAGGAGACCAAGAATGGCTGGAAATAAAGTTATGGAAATGATAACGGAGCCATATAGGTTGACTCGTCGATGTGAAGTGACTGCAATTCTCATTC---
















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|110191747|gb|EC873645.1|EC873645
EST:     AGAACAGACTGTTAGCACG                         ATACTGAGACCAAGAATGGCTGGAAACAAAATTATGGGAATGATAACAGAG
genomic: AGAACAGACTGTTAGCACGgtgagagttt ... atgttttcagATACTGAGACCAAGAATGGCTGGAAACAAAATTATGGGAATGATAACAGAG
EST: gi|78116577|gb|DV534964.1|DV534964
EST:     GAAACAAGAGGACTATGCTTATCAGAAGAACAGACTGTTAGCACG                         ATACTGAGACCAAGAATGGCTGGAAACAAAATTATGGGAATGATAACAGAG
genomic: GAAACAAGAGGACTATGCTTATCAGAAGAACAGACTGTTAGCACGgtgagagttt ... atgttttcagATACTGAGACCAAGAATGGCTGGAAACAAAATTATGGGAATGATAACAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttctgttccaattttgttcttctgctgcattctgaatgagactgatgttttcagATACTGAGACCAAGAATGGCTGGAAACAAAATTATGGGAATGATAACAGAGCCATATAGGCTGACACGGCGATGTGAAGTGACTGCAATTCTTATTCTGT
                                        gactgat  putative branch site (score: 3)
                                              tgttttc  CT-rich tract
          aattttgtt  TA-rich tract