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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtctctgctcttggttccatgttctattatcatatatgcagccttcttcctgccctttatttgatcgatgatccttttttgtagTTACTTTGATGTTCTTGTGCACATGGAAATGAGCTTGCATTCTATGGAAGTTGTGAACAGACTCACTACTGCCGTTGACCTTCCAACAGAATTTGTCCAT

Basic information

species Zea mays
transcript GRMZM2G098815_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G098815_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os12g09610.1 (Oryza sativa), 3'ss of exon 8
gtgtgtctctgctcttggttccatgttc--tattatcatatatgcagccttcttcctgccctttatttgatcgatgatccttttttgtagTTACTTTGATGTTCTTGTGCACATGGAAATGAGCTTGCATTCTATGGAAGTTGTGAACAGACTCACTACTGCCGTTGACCTTCCAACAGAATTTGTCCAT
|| ||||| |    ||  ||   |  ||  ||| ||||   |  |    || ||  |    |||| |||   ||   |  | ||||  |||||||| |||||||||||||| ||||| |||||| ||||||||||||||||||| ||||| || |||||||| || || || || ||||| |||||||||
gtatgtctgtttcttttctttgctagtcaatatgatcaccaacact-tttttttaatatattttaattg--tgacccttttctttttcagTTACTTAGATGTTCTTGTGCATATGGAGATGAGCCTGCATTCTATGGAAGTTGTAAACAGGCTTACTACTGCTGTAGAACTCCCGACAGAGTTTGTCCAT

upper sequence: GRMZM2G098815_T03 (Zea mays), 3'ss of exon 9
lower sequence: AT5G18420.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgtgtctctgctct--tggttccatgttctattatcatatatgcagccttcttcctgccctttatttgatcgatgatccttttttgtagTTACTTTGATGTTCTTGTGCACATGGAAATGAGCTTGCATTCTATGGAAGTTGTGAACAGACTCACTACTGCCGTTGACCTTCCAACAGAATTTGTCCAT
||  |||    |  |  ||||||||   | || | ||    |         |||          | |  |   ||| | |||      || || | ||| | ||| |   | ||||| |||||| |||| || |||||||||||||| || ||||| ||||| ||||| ||||| |  || ||  | |  
gtaagtcatcaccttattggttccaccatttactttcgaccaaaattataacttttaaagtgggaatctaagaatgcttcttc-----agCTATTATGAAGCTCTAGGAAATATGGACATGAGCCTGCACTCAATGGAAGTTGTGAATAGGCTCACAACTGCAGTTGAACTTCCCAAGGACTTCATACGG
















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|5740633|gb|AI948323.1|AI948323
EST:     ATTGCTGTTGAGGTTCTTTCAAAGCTAATTCACTCTCCTGACATTTCTGG                         TTACTTTGATGTTCTTGTGCACATGGAAATGAGCTTGCATTCTATGGAAGT
genomic: ATTGCTGTTGAGGTTCTTTCAAAGCTAATTCACTCTCCTGACATTTCTGGgtgtgtctct ... ttttttgtagTTACTTTGATGTTCTTGTGCACATGGAAATGAGCTTGCATTCTATGGAAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatatatgcagccttcttcctgccctttatttgatcgatgatccttttttgtagTTACTTTGATGTTCTTGTGCACATGGAAATGAGCTTGCATTCTATGGAAGTTGTGAACAGACTCACTACTGCCGTTGACCTTCCAACAGAATTTGTCCAT
                             atttgat  putative branch site (score: 5)
                                          tccttttttgt  putative PPT
                          tttatttgat  TA-rich tract