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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagttttgggtcaacccagtgacccaaaagaaataggacttgcacccctacggccctacctatgtactaaactggcttattcttggtgtcgtttatctagGTGAGGCAGAATCTGGTTTGGAGCGGCTACATCAATGTGCAGAGAAAGAACTTCAAATATACCTTGACGCAGAATCTCCCTCGAAAGACTTCAATGATTT

Basic information

species Zea mays
transcript GRMZM5G876621_T02
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G876621_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 3'ss of exon 13
gagttttgggtcaacccagtgacccaaaagaaataggacttgcacccctacggccctacctatgtactaaactggcttattcttggtg-tcgtttatctagGTGAGGCAGAATCTGGTTTGGAGCGGCTACATCAATGTGCAGAGAAAGAACTTCAAATATACCTTGACGCAGAATCTCCCTCGAAAGACTTCAATGATTT
                  ||         | ||||  |  |     | ||||    || |  | |||| | |||| ||||||||| || |  |||||||||||||||| ||||| |||||||||||||| ||||||||||||||||||||||||||| |||||||||| |||||||||||||| ||||| |||||||| ||
--------------gttcgtagttttgctgtaatactaaatag---catacgcaagtatcagt-tacttatctggtttattcttgttgcttatttatctagGTGAGGCGGAATCAGGTTTGGAGCGGCTGCATCAATGTGCAGAGAAAGAACTTCAAGTATACCTTGAAGCAGAATCTCCCTCAAAAGATTTCAATGACTT
















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|87155958|gb|DY400747.1|DY400747
EST:     CCTGCCAGAGCATGAGCATGCCAAAAGACAGTTCTTTGAATATCTGCAAG                         GTGAGGCAGAATCTGGTTTGGAGCGGCTACATCAATGTGCAGAGAAAGAAC
genomic: CCTGCCAGAGCATGAGCATGCCAAAAGACAGTTCTTTGAATATCTGCAAGgtttgcagtt ... gtttatctagGTGAGGCAGAATCTGGTTTGGAGCGGCTACATCAATGTGCAGAGAAAGAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccctacggccctacctatgtactaaactggcttattcttggtgtcgtttatctagGTGAGGCAGAATCTGGTTTGGAGCGGCTACATCAATGTGCAGAGAAAGAACTTCAAATATACCTTGACGCAGAATCTCCCTCGAAAGACTTCAATGATTT
                   tactaaa  putative branch site (score: 1)
                                              tttatct  putative PPT
                               ttattctt  TA-rich tract