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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggcgctccaactgctcaaaaagtgatcaatattgtttatcacatattcacatagtatcatataaacgtttgcaagaagaatttgtccgtgaaatgggattgatttacttgcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAGGACAGAGAGTTGTTTGAACTGGCCCAGCAATACCACAAAGTTGTTGCAG

Basic information

species Zea mays
transcript GRMZM2G015730_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G015730_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g17930.3 (Oryza sativa), 3'ss of exon 2
gtgggcgctccaactgctcaaaaagtgatcaatattgtttatcacatattcacatagtatcatataaacgtttg-caagaagaatt--tgtccgtgaaatgggattgatttacttgcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAGGACAGAGAGTTGTTTGAACTGGCCCAGCAATACCACAAAGTTGTTGCAG
      | |   | |||| |      | |  |||   | |   || |     ||| ||     ||     ||||  | |||| |||  ||   |  ||| ||||||||| | ||||  |||||||||||| | ||||| ||| || ||||| ||||||   |||||| | ||||||||||||||| |||||||||| || |||   |||||||| || || ||||
------gttgtcattgctga------ggtttataggatctgg-acctgcct-cattgtgctgcattggtttttgataggaaggattagtgcttgctaaacgggattgatctgcttgactttgtagGGGAGTGGTGAGCAGAAGCGCAAGGTCGTGAAAAAGAGCAAGGTAGAGAAGGACAGAGAGCTGTTTGAACTTGCGCAGGCGTACCACAAGGTGGTAGCAG

upper sequence: GRMZM2G015730_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g17930.1 (Oryza sativa), 3'ss of exon 2
gtgggcgctccaactgctcaaaaagtgatcaatattgtttatcacatattcacatagtatcatataaacgtttg-caagaagaatt--tgtccgtgaaatgggattgatttacttgcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAGGACAGAGAGTTGTTTGAACTGGCCCAGCAATACCACAAAGTTGTTGCAG
                            |  |||   | |   || |     ||| ||     ||     ||||  | |||| |||  ||   |  ||| ||||||||| | ||||  |||||||||||| | ||||| ||| || ||||| ||||||   |||||| | ||||||||||||||| |||||||||| || |||   |||||||| || || ||||
---------------------------gtttataggatctgg-acctgcct-cattgtgctgcattggtttttgataggaaggattagtgcttgctaaacgggattgatctgcttgactttgtagGGGAGTGGTGAGCAGAAGCGCAAGGTCGTGAAAAAGAGCAAGGTAGAGAAGGACAGAGAGCTGTTTGAACTTGCGCAGGCGTACCACAAGGTGGTAGCAG
















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|71428245|gb|DR809295.1|DR809295
EST:     GTGAAGCATCCTTGAAGAATTGTGCATCAGAGCTA                         GGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAG
genomic: GTGAAGCATCCTTGAAGAATTGTGCATCAGAGCTAgtgggcgctc ... gcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgtttgcaagaagaatttgtccgtgaaatgggattgatttacttgcttttgtagGGGAGCGTTGAGCCGAAACGTAAGGTTGTGAAACGTAGCAAGCTTGAGAAGGACAGAGAGTTGTTTGAACTGGCCCAGCAATACCACAAAGTTGTTGCAG
                                gattgat  putative branch site (score: 4)
                                          cttgctttt  putative PPT
                                 attgattta  TA-rich tract