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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagccccgccgcctcgtgcttcttgttcggatgatcgtgcctgcagctcactcattttgtgccatttttttcgcttctgacatgtctgagtgcggatggatgatccagGAGGATGTGGAGGCGACTGCCGGTTCACCTTCGAGGGCTTCAGCAGTGGGGACGGTGAACTGGGGAACGGCCACCCTCGTTGGCGTCTTCGCTGGGCTGC

Basic information

species Zea mays
transcript GRMZM5G806649_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G806649_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g16510.1 (Oryza sativa), 3'ss of exon 1
gtcagccccgccgcctcgtgcttcttgttcggatgatcgtgcctgcagctcactcattttgtgccatttttttcgcttctgacatgtctgagtgcggatggatgatccagGAGGATGTGGAGGCGACTGCCGGTT---CACCTTCGAGGGCTTCAGCAGTGGGGACGGTGAACTGGGGAACGGCCACCCTCGTTGGCGTCTTCGCTGGGCTGC
                          ||  | ||     | |||   ||  | || | | | |||           ||||||| ||  || ||| ||  | ||||| |||||||| | ||||| |   |  |||    | ||  ||||  |||| ||  ||||||||| ||||||||| || ||||||||||| ||||||||||| ||||   
--------------------------gtctgtatcg--atccctcgtgcgtattcgtctggcgcc-------cgagttctgacgtggttgggtgtgggcg-atgatgcagGAGGACGGGGAGGTGGAGGAGGGTGCCACGCCACCGAGAACTTCTGCGTTGGGGACGGCGAACTGGGGTACCGCCACCCTCGTCGGCGTCTTCGCCGGGC---
















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|14202906|gb|BG836583.1|BG836583
EST:     AGCCGGCRGCACCGCCCCCTCCTCCTCCTCCSGCTTCTCCTGCCCCTCCG                         GAGGATGTGGAGGCGACTGCCGGTTCACCTTCGAGGGCTTCAGCAGTGGGG
genomic: AGCCCGCGGCACCGCCCCCTCCTCCTCCTCCCGCTTCTCCTGCCCCTCCGgtcagccccg ... gatgatccagGAGGATGTGGAGGCGACTGCCGGTTCACCTTCGAGGGCTTCAGCAGTGGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttgtgccatttttttcgcttctgacatgtctgagtgcggatggatgatccagGAGGATGTGGAGGCGACTGCCGGTTCACCTTCGAGGGCTTCAGCAGTGGGGACGGTGAACTGGGGAACGGCCACCCTCGTTGGCGTCTTCGCTGGGCTGC
                     ttctgac  putative branch site (score: 2)
          attttttt  TA-rich tract