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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcttttcaattcacttgtgctgttttatttgtgcgtgagcatagggttctttggtgatgcctactcagccagcactggtcactggggttgacacgttatttatctgcatgcagGTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCACCAGGTGTTCAAGGACTACGTCGCCAGCGGCTCTGCCTTCGGCGCCACGC

Basic information

species Zea mays
transcript GRMZM2G123140_T04
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G123140_T05 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g42490.1 (Oryza sativa), 3'ss of exon 8
gtgagcttttcaattcacttgtgctgttttatttgtgcgtgagcatagggttctttggtgatgcctactcagccagcactggtcactggggttgacacgttatttatctgcatgcagGTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCACCAGGTGTTCAAGGACTACGTCGCCAGCGGCTCTGCCTTCGGCGCCACGC
                                    |   |  |||| | ||   | | | ||   | |    ||  |    | | ||| | |||||        ||    ||||||||||||||||||||||||| |||||| || || ||||||||||| ||||| | |||||||| ||||||||||||||||||| | |||||||| |||||||
------------------------------------gtacgtacatacgcttgcattg-ggtgttaatttgagcatgaaca-tgaatggaggtgaca--------atggcaatgcagGTGGTGTGGGTGGAGCACATGGAGATGGTCGGGGAGGAGAAGCCGCTGCAGCCGGTGTTCAGGGACTACGTCGCCAGCGGCGCCGCCTTCGGGGCCACGC
















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|149102263|gb|EE188158.2|EE188158
EST:     GGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGC                         GTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCAC
genomic: GGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGCgtgagctttt ... ctgcatgcagGTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCAC
EST: gi|149083873|gb|EE173247.2|EE173247
EST:     GGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGC                         GTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCAC
genomic: GGCGCCCCTCCGGTTGCATCATCCAGGACATGCCCAATGGCTACTCTAGCgtgagctttt ... ctgcatgcagGTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctactcagccagcactggtcactggggttgacacgttatttatctgcatgcagGTGGTGTGGGTGGAGCACACGGAGATTGTTGGAGAGGAGAAGCCACTGCACCAGGTGTTCAAGGACTACGTCGCCAGCGGCTCTGCCTTCGGCGCCACGC
                           ggttgac  putative branch site (score: 4)
                                        tttatct  putative PPT
                                     ttatttatct  TA-rich tract