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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagagtgttgcagcagttcctagctcatatatatgtcctcactttgatgatgatcttgtggttcttttaatctaacttgctgcgcgcgtgcgtgtgtgtgtgttttttttctgggtttcagGAAATGTCATCGCTCTCTTCCTCTTCCTTTCCCCAGT

Basic information

species Zea mays
transcript GRMZM2G153358_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G153358_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g35140.1 (Oryza sativa), 3'ss of exon 1
gtgagagtgttgcagcagttcctagctcatatatatgtcctcactttgatgat----gatcttgtggttcttttaatctaacttgctgcgcgcgtgcgtgtgtgtg-tgttttttttctgggtttcagGAAATGTCATCGCTCTCTTCCTCTTCCTTTCCCCAGT
  | ||||||| |        ||||||    |||||    ||   |  ||  |    | |  |  |     |||  |     ||  ||   || | | |  |  |  || ||  |||     ||||||| ||||||||||| |||||||||||| | ||||||||
--gtgagtgttactcagtactctagcttgattatattggttcctgtgaattttgttaggttataagaagtatttggtgagtgttcttgttggctttcttcagcttactggttggttttgttctttcagGCAATGTCATCGCGCTCTTCCTCTTCTTATCCCCAGT
















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|149075704|gb|EE164248.2|EE164248
EST:     AAGGTTCGAACAGATGGAGGATGTGGTGAAGTTCGTCTTTGGAGTTTCCG                         GAAATGTCATCGCTCTCTTCCTCTTCCTTTCCCCAGT
genomic: AAGGTTCGAACAGATGGAGGATGTGGTGAAGTTCGTCTTTGGAGTTTCCGgtgagagtgt ... tgggtttcagGAAATGTCATCGCTCTCTTCCTCTTCCTTTCCCCAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatctaacttgctgcgcgcgtgcgtgtgtgtgtgttttttttctgggtttcagGAAATGTCATCGCTCTCTTCCTCTTCCTTTCCCCAGT
   atctaac  putative branch site (score: 2)
                                tgtgttttttttct  putative PPT
                                  tgtttttttt  TA-rich tract