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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactagatttagcaccaatttgtgctactcttgtttttgaggcctgtattttataggccacacctattcaatttacttatgttgtattattgtgcttatgcagAACAAATGCAATGTTGGATACGCGTTCGTTAACATGATATCGCCGGTGCATATTATATCCTTCTACCAG

Basic information

species Zea mays
transcript GRMZM2G154229_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G154229_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os02g48790.4 (Oryza sativa), 3'ss of exon 10
gtactagatttagcaccaatttgtgctactcttgtttttgaggcctgtattttataggccacacctattcaatttacttatgttgtattattgtgcttatgcagAACAAATGCAATGTTGGATACGCGTTCGTTAACATGATATCGCCGGTGCATATTATATCCTTCTACCAG
||||||||||| | |     |||| || || ||  |   | | | ||| ||| ||   |  ||       |||||| ||||        ||| | |  | ||||||||||||||||||||| ||||||||| ||||||||||||| || ||||| ||| |||| |||||||||
gtactagattt-gtattgtattgtactgctgtt--tgcagtgacttgt-tttgatgcccagcag------aatttaattat--------attttccccacgcagAACAAATGCAATGTTGGCTACGCGTTCATTAACATGATATCACCTGTGCACATTGTATCGTTCTACCAG

upper sequence: GRMZM2G154229_T01 (Zea mays), 3'ss of exon 10
lower sequence: PP1S78_22V6.1 (Physcomitrella patens), 3'ss of exon 12
--------------------------------------------------------------------gtactagatttagcac--caatttgtgctact---cttgtttttgaggcctgtattttataggccacacctattcaatttacttatgt---------tgtattattgtgcttatgcagAACAAATGCAATGTTGGATACGCGTTCGTTAACATGATATCGCCGGTGCATATTATATCCTTCTACCAG-------------------------------
                                                                      | ||| ||| |     ||    | |  | |      | | | ||||   | |  |    ||       |  |       | | ||          ||     |  ||  |  ||||||||| ||||||||||| || |||||| | |||||||| ||||||  ||  ||  |  | || ||| ||                               
gtacgttgaccggcactgtgatgggttgagtatttggtagtggtcgggtggagcataggtgtgcattccaagtaggtttggggggacagaacgagacagtgggtgaggtgtggaggggggcacgtgtggggttgtgtttggtgcgaaggcgtgtgggtaacgaggtggcgcgtgatgggtgcgcagAACAAGTGCAATGTTGGGTATGCGTTCATCAACATGATGTCGCCGTCGCGCATAGTTCCGTTTTACAAGGCGTTCAACGGGAAGAAGTGGGAGAAGTTCA
















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|14243447|gb|BG841199.2|BG841199
EST:     TTATGACTTTTTCTACCTGCCAATTGATTTCAAG                         AACAAATGCAATGTTGGATACGCGTTCGTTAACATGATATCGCCGGTGCAT
genomic: TTATGACTTTTTCTACCTGCCAATTGATTTCAAGgtactagatt ... gcttatgcagAACAAATGCAATGTTGGATACGCGTTCGTTAACATGATATCGCCGGTGCAT
EST: gi|67017527|gb|CO446276.1|CO446276
EST:     GCTTCACAGAGGAAACT-ATGACTTTNTCTACCTGCCAATTGATTTCAAG                         AACAAATGCA-TGTTGGATAACGCGT-CATTA-CATGATATCG
genomic: GCTTCACAGAGGAA-CTTATGACTTTTTCTACCTGCCAATTGATTTCAAGgtactagatt ... gcttatgcagAACAAATGCAATGTTGGATA-CGCGTTCGTTAACATGATATCG
EST: gi|60343700|gb|DN210673.1|DN210673
EST:     AGCTTCACAGAGGAACTTATGACTTTTTCTACCTGCCAATTGATTTCAAG                         AACAAATGCAATGTTGGATACGCGTTCGTTAACATGATATCGCCGGTGCAT
genomic: AGCTTCACAGAGGAACTTATGACTTTTTCTACCTGCCAATTGATTTCAAGgtactagatt ... gcttatgcagAACAAATGCAATGTTGGATACGCGTTCGTTAACATGATATCGCCGGTGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttataggccacacctattcaatttacttatgttgtattattgtgcttatgcagAACAAATGCAATGTTGGATACGCGTTCGTTAACATGATATCGCCGGTGCATATTATATCCTTCTACCAG
                tattcaatttacttat  TA-rich tract