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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgtgggattgtggttgtagtggttcatgcatacagtacatattactggataagaggacatagattatgtatcactatgttatattttcctttgatgcagAACAGCTCTGGGTCCTTGATTCTGTCCCTGGACAAGTAGAAACAGAGAACAGTGATGGTGAAGTTGAACAGGTTTTGCAAACGCTAGCGAGTCTTCCTTC

Basic information

species Zea mays
transcript GRMZM5G831584_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G831584_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g64262.1 (Oryza sativa), 3'ss of exon 2
ctgtgggattgtggttgtagtggttcatgcatacagtacatattactggataagaggacatagat--tatgtatcactatgttatat-tttcctttgatgcagAACAGCTCTGGGTCCTTGATTCTGTCCCTGGACAAGTAGAAACAGAGAACAGTGATGGTGAAGTTGAACAGGTTTTGCAAACGCTAGCGAGTCTTCCTTC
   |  || |||    ||||||||  ||    |     |   |   ||  | | | || | ||    ||||| ||||| |||||||  |||  ||||||||||||||||| ||||| ||||||||||| ||||| |||||||||||||| |||||||||||||||||||||| ||||||||||||||| || |||||||||||
---ttcgagtgtaaaagtagtggtatatttgcaattctcccttgtttgattcataagagaaaggacatatgtttcactgtgttatacgtttgttttgatgcagAACAGCTTTGGGTGCTTGATTCTGTTCCTGGTCAAGTAGAAACAGATAACAGTGATGGTGAAGTTGAACGGGTTTTGCAAACGCTGGCAAGTCTTCCTTC
















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|211176759|gb|FL088435.1|FL088435
EST:     AGAGCTGCTCTCGCGGTGTGTATGGAGATTCTGCTAATCTTCCCAAACAG                         --C---TCTGGGTCCTTGATTCTGTCCCTGGACAAGTAGAAACAGAGAACA
genomic: AGAGCTGCTCTCGCGGTGTGTATGGAGATTCTGCTAATCTTCCCAAACAGgtgagaggag ... tttgatgcagAACAGCTCTGGGTCCTTGATTCTGTCCCTGGACAAGTAGAAACAGAGAACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggataagaggacatagattatgtatcactatgttatattttcctttgatgcagAACAGCTCTGGGTCCTTGATTCTGTCCCTGGACAAGTAGAAACAGAGAACAGTGATGGTGAAGTTGAACAGGTTTTGCAAACGCTAGCGAGTCTTCCTTC
                                            ctttgat  putative branch site (score: 5)
                                  ttatattttccttt  CT-rich tract
                            actatgttatatttt  TA-rich tract