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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcggacggacggaatcaccgtctcgtcgtcgacagaccgtatttttttcttctctttcccccccgccccgatttcagttccaggttcctgacacgcggtgattccacttgccaagACGCAACTGGAGCGGCACGAGAACGCGCTTCTCAAGCAAGAGAACGACAAGCTGCGGGCCGAGAACATGGCGATCCGGGAGGCGATGCGCAGCCCGATGT

Basic information

species Zea mays
transcript GRMZM2G026643_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G026643_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g45250.1 (Oryza sativa), 3'ss of exon 3
--------------------gtaagcggacggacggaatcaccgtctcgtcgtcgacagaccgtatttttttcttctctttcccccccgccccgatttca-gttccaggttcctgacacgcggtga--ttccacttgccaagACGCAACTGGAGCGGCACGAGAACGCGCTTCTCAAGCAAGAGAACGACAAGCTGCGGGCCGAGAACATGGCGATCCGGGAGGCGATGCGCAGCCCGATGT
                           |   | |  | ||  | |||| |||||| |   |       ||   |||         || | | || ||||| | |||     ||   | ||| | ||  |||   || ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||| |||||||||||| ||||||||||||||||||||||||| ||||
gtaaatcatccgcgagaacatcgcatcgtgtgccttagtcttcttctc-tcgtcggcgttcgagccggttcgtttcgtgcaatttcctgacacggtttcatgatcc---ccccgcgcgcgccgcgatcttcgttttaccaagACGCAACTGGAGCGGCACGAGAACGCGCTTCTCAAGCAGGAGAACGACAAGCTGCGCGCCGAGAACATGACGATCCGGGAGGCGATGCGCAGCCCAATGT
















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|148952398|gb|EC898218.2|EC898218
EST:     ACCCGCGCCAGGTCAAGTTCTGGTTCCAGAACCGCCGCACGCAGATGAAG                         ACGCAACTGGAGCGGCACGAGAACGCGCTTCTCAAGCAAGAGAACGACAAG
genomic: ACCCGCGCCAGGTCAAGTTCTGGTTCCAGAACCGCCGCACGCAGATGAAGgtaagcggac ... acttgccaagACGCAACTGGAGCGGCACGAGAACGCGCTTCTCAAGCAAGAGAACGACAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccccgccccgatttcagttccaggttcctgacacgcggtgattccacttgccaagACGCAACTGGAGCGGCACGAGAACGCGCTTCTCAAGCAAGAGAACGACAAGCTGCGGGCCGAGAACATGGCGATCCGGGAGGCGATGCGCAGCCCGATGT
                         tcctgac  putative branch site (score: 2)
                                         ttccactt  putative PPT