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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatcctcctatgtaatgccaatttggttctgaaataattccagtaatagactgacttagcgtctttatcttgcagATGTGCTTGAGTGCTTTTAACAAAGATGCTGATCTTGATGTTCTGAACCATCCAATCCTGAACTTCTTTTACTACCTG

Basic information

species Zea mays
transcript GRMZM2G171469_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171469_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g02850.2 (Oryza sativa), 3'ss of exon 9
gtaaatcct---cctatgtaatgccaatttggttctgaaataattccagtaatagactgacttagcgtctttatcttgcagATGTGCTTGAGTGCTTTTAACAAAGATGCTGATCTTGATGTTCTGAACCATCCAATCCTGAACTTCTTTTACTACCTG
|||  ||||    | || | |||  |    |||  | | |   ||  | || |  ||| | |||| |     ||||| ||||||||||| | ||| ||| | ||||| || ||||||||||||||||||||||||||||| |||||||| |||||| ||
gtacgtcctatgtcaatattatgttagggaggtcttcagac--tttaattactccacttaattagagc----atcttacagATGTGCTTAAATGCGTTTGATAAAGAAGCCGATCTTGATGTTCTGAACCATCCAATCCTAAACTTCTTCTACTACTTG
















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|91873273|gb|EB403230.1|EB403230
EST:     GCTATGTGACCACCATTTGCTTTGGTTGCTTCTTGATCAGATGCATAATG                         ATGTGCTTGATTGCTTTTTACAA-GATGCT
genomic: GCTATGTGACCACCATTTGCTTTGGTTGCTTCTTGATCAGATGCATAATGgtaaatcctc ... tatcttgcagATGTGCTTGAGTGCTTTTAACAAAGATGCT
EST: gi|5895618|gb|AW036864.1|AW036864
EST:     GCTATGTGACCACCATTTGCTTTGGTTGCTTCTTGATCAGATGCATAATG                         ATGTGCTTGAGTGCTTTTAACAAAGATGCTGATCTTGATGTTCTGAACCAT
genomic: GCTATGTGACCACCATTTGCTTTGGTTGCTTCTTGATCAGATGCATAATGgtaaatcctc ... tatcttgcagATGTGCTTGAGTGCTTTTAACAAAGATGCTGATCTTGATGTTCTGAACCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttggttctgaaataattccagtaatagactgacttagcgtctttatcttgcagATGTGCTTGAGTGCTTTTAACAAAGATGCTGATCTTGATGTTCTGAACCATCCAATCCTGAACTTCTTTTACTACCTG
                            gactgac  putative branch site (score: 2)
                                         tctttatctt  putative PPT
         tgaaataatt  TA-rich tract