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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttaattttactgtgtctgtcactgaacagggatagcttaatgtttcagcaagatagaattagtcacgtgcttgctgctaggtcttagagagctgaactctcgacgaacaatgctacgagaatggttcgtgactcacaatttctttttactgctttacccttattccagGACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCAGATGGTTGAGAACACTTGCATAGAACGATATCAGACAGTTGAAAATGGA

Basic information

species Zea mays
transcript GRMZM2G108457_T01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 3'ss of exon 12
gtaagtt--aattttactgtgtctgtcactgaacagggatagcttaatgtttcagcaagatagaattagtcacgtgctt-gctgctaggtcttagagag-ctgaactctcgacgaacaatgctacgagaatggttcgtgactcacaatttctttttactgctttacccttattccagGACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCAGATGGTTGAGAACACTTGCATAGAACGATATC-AGACAGTTGAAAATGGA
|||||||   |||  |||        |    ||       || || | |  |  | |   |    |  || | |  ||| |   ||| |   |||||||  |   ||   || ||||||   || |   ||  |    ||   |  |  | | ||| |||||||   | |  ||||||||| || |||| |||||| |  |||||||| |||||||||||||| ||||||||||||||||| ||||| ||| | ||||   | | || |     ||  
gtaagttcagattccactaacatccccctaaaatgaactgagtttgaaggattgggagctttatttatgttagggtcttagggactaagaagtagagagatttgtctgctgatgaacaaca-taagctgatattggcagaaaaatgacgtttgtttgctgctttgatcctcatccagGACTGGAACAAAGATCTCCTGTACTAGATGCGGGTCTTCTTGGGCTCCTCAGATGGTTGAGAACGCTTGCTTAGGATGATACGGACAAAGATTTGGTTGA-
















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|149086468|gb|EE176013.2|EE176013
EST:     TGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTG                         GACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA
genomic: TGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTGgtaagttaat ... cttattccagGACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA
EST: gi|71431774|gb|DR812824.1|DR812824
EST:     TGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTG                         GACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA
genomic: TGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTGgtaagttaat ... cttattccagGACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA
EST: gi|211081518|gb|FL472798.1|FL472798
EST:     TGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTG                         GACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA
genomic: TGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTGgtaagttaat ... cttattccagGACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA
EST: gi|60336973|gb|DN203946.1|DN203946
EST:     TGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTG                         GACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA
genomic: TGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTGgtaagttaat ... cttattccagGACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA
EST: gi|86471657|gb|DY238027.1|DY238027
EST:     TGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTG                         GACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA
genomic: TGTAGCATTCTCAGGGATCATGTGCGCTCACCGAGTCGCTGCAGATATTGgtaagttaat ... cttattccagGACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA
EST: gi|166615281|gb|EG315468.1|EG315468
EST:     GGATCATGTGCGCTCACCGAGTCGCTGCAGATATTG                         GACTAGAGCAAAAATCTCCGGCTCTAGATGTTGGTCTTCTTGGGCTACTCA
genomic: GGATCATGTGCGCTCACCGAGTCGCTGCAGATATTGgtaagttaat ... cttattccagGACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacgagaatggttcgtgactcacaatttctttttactgctttacccttattccagGACTAGAGCAAAAATCTCCGGCTCTAGATGCTGGTCTTCTTGGGCTACTCAGATGGTTGAGAACACTTGCATAGAACGATATCAGACAGTTGAAAATGGA
                gactcac  putative branch site (score: 2)
                         tttctttttactgctt  putative PPT
                     acaatttcttttta  TA-rich tract