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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaactctgaccattagacacactcactctgcagtggtattactggacactgtatataacagaggcggcctactgctgcatctcgctgtttttattttcagGGTGAGCCCCTCGAAGACTCCCGTGCGTCCCCGTGCGCCTCGCCAGCTGATGCACTAGAGGTGTCCTAGGTACAGGAGGTGCGGAAGGCACTGCTTATAT

Basic information

species Zea mays
transcript GRMZM2G173428_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G173428_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 9
gtaaaaactctgaccattagacacactcactctgcagtggtattactggacactgtatataacagaggcggcctactgctgcatctcgctgtttttattttcagGGTGAGCCCCTCGAAGACTCCCGTGCGTCCCCGTGCGCCTCGCCAGCTGATGCACTAGAGGTGTCCTAGGTACAGGAGGTGCGGAAGGCACTGCTTATAT--
||||| | | ||  | ||  ||| | | ||   ||  | |||  |    |||   ||| || | ||   |    ||||  ||  ||   || || ||||| ||||||||||||||| ||||||||||||||||||||||| |||||||||||||||||||||  ||||  |||||||||||||||| || ||||||||||||||  
gtaaaga-tgtggtctttc-acatattgaca--gcttttgtacaa----acaagttattta-cggaaatg----actgaggcggctt--tgcttatattt-cagGGTGAGCCCCTCAAAGACTCCCGTGCGTCCCCGTGCACCTCGCCAGCTGATGCACTAG--GTGTTGTAGGTACAGGAGGTGCTGATGGCACTGCTTATATAT
















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|32923558|gb|CF028370.1|CF028370
EST:     ACCGGTGCCCTGAACTGCAGTGGCGTGATACTGGGATCCTTGCCAATAAG                         GGTGAGCCCCTCGAAGACTCCCGTGCGTCCCCGTGCGCCTCGCCAGGTGAT
genomic: ACCGCTGCCCTGAACTGCAGTGGCGTGATACTGGGATCCTTGCCAATAAGgtaaaaactc ... ttattttcagGGTGAGCCCCTCGAAGACTCCCGTGCGTCCCCGTGCGCCTCGCCAGCTGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acactgtatataacagaggcggcctactgctgcatctcgctgtttttattttcagGGTGAGCCCCTCGAAGACTCCCGTGCGTCCCCGTGCGCCTCGCCAGCTGATGCACTAGAGGTGTCCTAGGTACAGGAGGTGCGGAAGGCACTGCTTATAT
       atataac  putative branch site (score: 3)
                                       ctgtttttattttc  putative PPT
                                        tgtttttattttca  TA-rich tract