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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atatatatatatatatatatatatatatatatatatatatccaatgcaattaaaatagacatgtatgtttttaaaataataatgtttccctctaatttagGCCTCATTGGTGATGTCCCTGTAATGCTTGCCAAGCCACAGACTTTTATGAATGCAAGTGGTGAGTCT

Basic information

species Zea mays
transcript GRMZM2G179793_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179793_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g47630.1 (Oryza sativa), 3'ss of exon 2
atatatatatatatatatatatatatatatatatatatatccaatgcaa--ttaaaatagacatgtatgtttttaaaataataatgtttccctctaatttagGCCTCATTGGTGATGTCCCTGTAATGCTTGCCAAGCCACAGACTTTTATGAATGCAAGTGGTGAGTCT
 | || ||  | | |   || ||| ||| || |  | |    ||  |||  |||| | |||||  ||||    |  | |  |  |  ||  || | || ||||||| |||||||||||||| |||||||||||||||||||||||||  |||||||||||||||||||||
-tctacatgaa-agaccaatctatttatttaaaattttcatgaacacaaccttaatagagacacatatgacaatgcactgttttttcttatctttcatatagGCCTTATTGGTGATGTCCCAGTAATGCTTGCCAAGCCACAGACTTACATGAATGCAAGTGGTGAGTCT
















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|211115065|gb|FL244798.1|FL244798
EST:     TGAGGGCATATCAGTCAGCAGTAAGCAATTTAAGGCAATTGTCGGAAAAG                         GCCTCATTGGTGATGTCCCTGTAATGCTTGCCAAGCCACAGACTTTTATGA
genomic: TGAGGGCATATCAGTCAGCAGTAAGCAATTTAAGGCAATTGTCGGAAAAGgtaattaatt ... tctaatttagGCCTCATTGGTGATGTCCCTGTAATGCTTGCCAAGCCACAGACTTTTATGA
EST: gi|211037602|gb|FL306240.1|FL306240
EST:     TGAGGGCATATCATTCAGCAGTAAGCAATTTAAGGCAGTTGTCGGAAAAG                         GCCTCATTGGTGATGTCCCTGTAATGCTTGCCAAGCCACAGACTTTTATGA
genomic: TGAGGGCATATCAGTCAGCAGTAAGCAATTTAAGGCAATTGTCGGAAAAGgtaattaatt ... tctaatttagGCCTCATTGGTGATGTCCCTGTAATGCTTGCCAAGCCACAGACTTTTATGA
EST: gi|18661101|gb|BM501210.1|BM501210
EST:     ATTTAAGGCAATTGTCGGAAAAG                         GCCTCATTGGTGATGTCCCTGTAATGCTTGCCAAGCCACAGACTTTTATGA
genomic: ATTTAAGGCAATTGTCGGAAAAGgtaattaatt ... tctaatttagGCCTCATTGGTGATGTCCCTGTAATGCTTGCCAAGCCACAGACTTTTATGA
EST: gi|211115067|gb|FL244800.1|FL244800
EST:     TGAGGGCATATCATTCAGCAGTAAGCAATTTAAGGCAGTTGTCGGAAAAG                         GCCTCATTGGTGATGTCCCTGTAATGCTTGCCCAAGC-ACAGACTTTTATG
genomic: TGAGGGCATATCAGTCAGCAGTAAGCAATTTAAGGCAATTGTCGGAAAAGgtaattaatt ... tctaatttagGCCTCATTGGTGATGTCCCTGTAATGCTTGCC-AAGCCACAGACTTTTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaattaaaatagacatgtatgtttttaaaataataatgtttccctctaatttagGCCTCATTGGTGATGTCCCTGTAATGCTTGCCAAGCCACAGACTTTTATGAATGCAAGTGGTGAGTCT
                                            ctctaat  putative branch site (score: 3)
                                       tttccctctaattt  CT-rich tract
     taaaatagacatgtat  TA-rich tract