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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaataataactctttactgtttgccttttgtagttctctctctcgttgctagtagtgctgccaggagtagagtagtatgtggccaggaggacgtgggcgcgacgcaagtgtgccaggtggttgaagcgcaatgctggacctggactactggaatttgacgcctccgtggtgaactgcagGGCGGCGAGGTGCCGGTGATCGAGACGCTGGGCACGTTCGCGCTCTCCGTCGGGGCGGCG

Basic information

species Zea mays
transcript GRMZM2G152135_T06
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152135_T06 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g48880.1 (Oryza sativa), 3'ss of exon 1
gtaaataataactctttactgtttgccttttgtagttctctctctcgttgctagtagtgctgccaggagtagagtagtatgtggccaggaggacgtgggcgcgacgcaagtgtgccaggtggttgaagcgcaatgctggacctggactactggaatttgacgcctccgtggtgaactgcagGGCGGCGAGGTGCCGGTGATCGAGACGCTGGGCACGTTCGCGCTCTCCGTCGGGGCGGCG
                               |||  ||||    ||| | ||| |     |       |  ||| |||   | |||   |     |  ||  |||  |  ||| |||| |  || ||| |      |||   | |||    |    ||||   ||  | ||     |||||||||| || |||||| ||| ||||| | | |||||||| |||||||||||||| || |||
-------------------------------gtacatctcctcttcgcttctacttccattatagtatgcggagaagt-catcgccgtaa---tttttgccggaca-agatgtcccag-taatttaagtgtgcaaatggttgttgaccgtgg----ttgatatctgtgcggccg--tgcagGGCGGGGATGTGCCGATGACCGAGATGTTTGGCACGTTTGCGCTCTCCGTCGGCGCAGCG
















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|149107956|gb|EE292313.2|EE292313
EST:     CGTCCATGGCCGTCGCCGCCGTGTACTATCGCTTCAGCTGGCAAATGGAG                         GGCGGCGAGGTGCCGGTGATCGAGACGCTGGGCACGTTCGCGCTCTCCGTC
genomic: CGTCCATGGCCGTCGCCGCCGTGTACTATCGCTTCAGCTGGCAAATGGAGgtaaataata ... tgaactgcagGGCGGCGAGGTGCCGGTGATCGAGACGCTGGGCACGTTCGCGCTCTCCGTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcgcaatgctggacctggactactggaatttgacgcctccgtggtgaactgcagGGCGGCGAGGTGCCGGTGATCGAGACGCTGGGCACGTTCGCGCTCTCCGTCGGGGCGGCG
                            atttgac  putative branch site (score: 4)
                           aatttga  TA-rich tract