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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccccaacttctgtagacatggccaaataacaaatccatttaattattgcttgctaggattgataaaccaatatattattcattcttttggtttctgcagAAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCACTGGAGCCCATGCCACGGAAAAGCCAGAACATTCGTCTAAATAGAATGACGTG

Basic information

species Zea mays
transcript GRMZM2G149662_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149662_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g64780.4 (Oryza sativa), 3'ss of exon 5
--------------------------------------------------------------------------------tccccaacttctgtagacatggc-caaataacaaatcc-------atttaattattgcttgcta----ggattgataaaccaatatattattcattcttttggtttctgcagAAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCACTGGAGCCCATGCCACGGAAAAGCCAGAACATTCGTCTAAATAGAATGACGTG
                                                                                | |  || |||| |   ||| |     || | ||| ||       | | |||     | ||  |      |||  |||  || | | ||  |  |  || ||  |  | ||||||||||||| || ||||||||||| ||||| |||||||| || || || || ||||  ||| |||| |||||||| || |||||||||||||| | |  
gttggttctcctatcttgcttatgtactatctcctactgcaatattgcatgatcatgtgctattttactggtttctcctgtgcttaatttctctctgcatagagtggatgataaaaccttcctgaagtcaatcgacccatgtaattctaaatttctaatacagtgtttttcttttctttctgcatcattcagAAATAATTGTTTCTGGAGGAATGACTATGCCACAGGTGATCGCGTCCCTTGAACCCACCCCAAGGAAGAGCCAGAATATCCGTCTAAATAGAATAATGAC
















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|91053026|gb|EB163444.1|EB163444
EST:     GAACTCTGAGGAGATCATAAGACCTAATTTATCCATTCGAGAAGGAATTG                         AAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCACTGG
genomic: GAACTCTGAGGAGATCATAAGACCTAATTTATCCATTCGAGAAGGAATTGgtacggtagt ... gtttctgcagAAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCACTGG
EST: gi|148956825|gb|EC902729.2|EC902729
EST:     GAACTCTGAGGAGATCATAAGACCTAATTTATCCATTCGAGAAGGAATTG                         AAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCACTGG
genomic: GAACTCTGAGGAGATCATAAGACCTAATTTATCCATTCGAGAAGGAATTGgtacggtagt ... gtttctgcagAAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCACTGG
EST: gi|71440103|gb|DR821153.1|DR821153
EST:     AACTCTGAGGAGATCATAAGACCTAATTTATCCATTCGAGAAGGA-TTNG                         AAATAATTGTGTCAGGAGGAATGACCATGCC
genomic: AACTCTGAGGAGATCATAAGACCTAATTTATCCATTCGAGAAGGAATT-Ggtacggtagt ... gtttctgcagAAATAATTGTGTCAGGAGGAATGACCATGCC
EST: gi|78077279|gb|DV505713.1|DV505713
EST:     GAACTCTGAGGAGATCATAAGACCTAATTTATCCATTCGAGAAGGAATTG                         AAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCCCTGG
genomic: GAACTCTGAGGAGATCATAAGACCTAATTTATCCATTCGAGAAGGAATTGgtacggtagt ... gtttctgcagAAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCACTGG
EST: gi|71772305|gb|DR970241.1|DR970241
EST:     GAACTCTGAGGAGATCATAAGACCTAATTTATCCATTCGAGAAGGAATTG                         AAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCACTGG
genomic: GAACTCTGAGGAGATCATAAGACCTAATTTATCCATTCGAGAAGGAATTGgtacggtagt ... gtttctgcagAAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCACTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgcttgctaggattgataaaccaatatattattcattcttttggtttctgcagAAATAATTGTGTCAGGAGGAATGACCATGCCTCAGGTGATTGCATCACTGGAGCCCATGCCACGGAAAAGCCAGAACATTCGTCTAAATAGAATGACGTG
            gattgat  putative branch site (score: 4)
                                     ttcttttggtttct  putative PPT
                 ataaaccaatatatta  TA-rich tract