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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataccctttgagttgtgtttcccacttatttgatgctaattgttgacgcattctctagcctgaaagacatattccattcttgtattgttttcattttcagCATCATGGTGCTTCTAGGCTTGCCAGTACAAGTGTTGCGAAGCAGTCCTCAG

Basic information

species Zea mays
transcript GRMZM2G005036_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G005036_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g44916.1 (Oryza sativa), 3'ss of exon 1
--ataccctttgagt-tgtgtttcccact----tatttgatgctaattgttgacgcattctctagcctgaaagacatattccattcttgtattgttttcattttcagCATCATGGTGCTTCTAGGCTTGCCAGTACAAGTGTTGCGAAGCAGTCCTCAG------------------------------------------------
   ||   | | ||| | |  ||    ||    | |||     ||    ||||| |||||| ||   |||| || |  | || ||  | ||| |     | ||||||||||||||||||  |||| |||| ||||||||||||| ||||||||| ||||                                                
atgtagtatattagtatcttctttgtgctgtgttgtttctctgtatcaattgacacattctatattatgaa-gataagtaccttttgt-tatcg-----actttcagCATCATGGTGCTAGTAGGTTTGCTAGTACAAGTGTTGTGAAGCAGTCTTCAGGTGGTCTGCTTGGCTGGTTTCTTGGTGGTAACTCAAGCCAGCTTCCTC
















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|88755226|gb|DY539367.1|DY539367
EST:     CGCCGGAGACCATGTACCGCGCCGCCGGGAGCCACCTCCGCTCCCTCAAG                         CATCATGGTGCTTCTAGGCTTGCCAGTACAAGTGTTGCGAAGCAGTCCTCA
genomic: CGCCGGAGACCATGTACCGCGCCGCCGGGAGCCACCTCCGCTCCCTCAAGgttccgccct ... tcattttcagCATCATGGTGCTTCTAGGCTTGCCAGTACAAGTGTTGCGAAGCAGTCCTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgcattctctagcctgaaagacatattccattcttgtattgttttcattttcagCATCATGGTGCTTCTAGGCTTGCCAGTACAAGTGTTGCGAAGCAGTCCTCAG
 tgttgac  putative branch site (score: 3)
                                       ttgttttcattttc  putative PPT
                                     tattgttttcatttt  TA-rich tract