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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgaagcacatgagctctcttcttagtatacaggtcatggatgtgatttattgcagcatagtgttagtcctggagtctgaatggctgatgatctattttctcagGGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTGCCACATCTGCTACACAG

Basic information

species Zea mays
transcript GRMZM2G085000_T04
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G085000_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g44400.1 (Oryza sativa), 3'ss of exon 9
gtctgaagcacatgagctctcttcttagtatacaggtcatggatgtgatttattgcagcatagtgttagtcctggagtctgaatggctgatgatctattttctcagGGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTGCCACATCTGCTACACAG
            |||   |||| | || |     | |      ||   |||  ||  || || ||  ||  |  || |||||  ||   ||| | |||  ||  |||||||||| ||||||| | ||||||||||||| |||||||| || || ||||||||  ||||||||||
---------gtctgaatcctctgcatattgatacgtttgcatttgccgtttcctgtggcttactgccagatccagaatctgaccggtgcatgctttatcatc--agGGATCTCCTTTCTGTAAAATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG
















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|40303424|gb|CK347811.1|CK347811
EST:     ATACTGCTTCAAGAATCCCACCGCAGCCTATAGAGATATGGGCATTCGAG                         GGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTG
genomic: ATACTGCTTCAAGAATCCCACCGCAGCCTATAGAGATATGGGCATTCGAGgtctgaagca ... attttctcagGGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTG
EST: gi|148937629|gb|EC881822.2|EC881822
EST:     ATACTGCTTCAAGAATCCCACCGCAGCCTATAGAGATATGGGCATTCGAG                         GGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTG
genomic: ATACTGCTTCAAGAATCCCACCGCAGCCTATAGAGATATGGGCATTCGAGgtctgaagca ... attttctcagGGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTG
EST: gi|60352714|gb|DN219687.1|DN219687
EST:     ATACTGCTTCAAGAATCCCACCGCAGCCTATAGAGATATGGGCATTCGAG                         GGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTG
genomic: ATACTGCTTCAAGAATCCCACCGCAGCCTATAGAGATATGGGCATTCGAGgtctgaagca ... attttctcagGGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgcagcatagtgttagtcctggagtctgaatggctgatgatctattttctcagGGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTGCCACATCTGCTACACAG
                                 ggctgat  putative branch site (score: 4)
                                          tctattttctc  putative PPT
                                         atctatttt  TA-rich tract