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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattcttttctacttcattataatctggaaacgttgatagacctgttgaagggacttactctttttccttcattcagCTTTCTAGGCATGTAGTCCAAAATATCAATCTTGCTGGTGGTAGCTTCTTAGGAGTCTCTCGCGGTGGTGCAAACATTTCAGACATTGTTGACAGTATTC

Basic information

species Zea mays
transcript GRMZM2G009591_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G009591_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g26570.1 (Oryza sativa), 3'ss of exon 6
gtaagattcttt--tctacttcattataatctggaaacgttgata----gacctgttgaagggacttactctttttccttcattcagCTTTCTAGGCATGTAGTCCAAAATATCAATCTTGCTGGTGGTAGCTTCTTAGGAGTCTCTCGCGGTGGTGCAAACATTTCAGACATTGTTGACAGTATTC
||||||  | ||   | | ||  |   ||  |    |   | |||     |   ||| || || |||  | |||  |||||| |||||||  |||||| || ||||| |||||||||||||||||||| || ||||||||||| ||||| ||||| ||||| || ||||||||||| ||||| || |
gtaagagacattaaccaagtttctggaaaaataatgataatcataccaaaagtagtttaatggtctt--tttttccccttcactcagCTTAATAGGCAAGTTGTCCAGAATATCAATCTTGCTGGTGGAAGTTTCTTAGGAGTTTCTCGTGGTGGAGCAAATATCTCAGACATTGTCGACAGCATAC
















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|211158478|gb|FL301953.1|FL301953
EST:     TACAGCATGGATTCCGTGGATTTTTTGAGGATCACTTATCARAAGTGCCA                         CTTTCTAGGCATGTAGTCCAAAATATCAATCTTGCTGGTGGTAGCTTCTTA
genomic: TACAGCATGGATTCCGTGGATTTTTTGAGGATCACTTATCAGAAGTGCCAgtaagattct ... cttcattcagCTTTCTAGGCATGTAGTCCAAAATATCAATCTTGCTGGTGGTAGCTTCTTA
EST: gi|67014533|gb|CO443282.1|CO443282
EST:     TACAGCATGGATTCCGTGGATTTTTTGAGGATCACTTATCAGAAGTGCCA                         CTTTCTAGGCATGTAGTCCAAAATATCAATCTTGCTGGTGGTAGCTTCTTA
genomic: TACAGCATGGATTCCGTGGATTTTTTGAGGATCACTTATCAGAAGTGCCAgtaagattct ... cttcattcagCTTTCTAGGCATGTAGTCCAAAATATCAATCTTGCTGGTGGTAGCTTCTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctggaaacgttgatagacctgttgaagggacttactctttttccttcattcagCTTTCTAGGCATGTAGTCCAAAATATCAATCTTGCTGGTGGTAGCTTCTTAGGAGTCTCTCGCGGTGGTGCAAACATTTCAGACATTGTTGACAGTATTC
                              gacttac  putative branch site (score: 2)
                                cttactctttttcctt  CT-rich tract
                                     tcttttt  TA-rich tract