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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcttctcatgactaacagttattttcatgtgaattcacatagcaattctaaagaagctaggatataaatgctctccttatgtatttgccttggtttggcagGTCATGAGTGTCAAAGCTCTTGGGATAGCCTTGAAGCTGACATTTTCTGGGATGAACCAGCTAGTCTATCCACAAACATGGGTGTTCTCATCCGTTGTAA

Basic information

species Zea mays
transcript GRMZM2G164797_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G164797_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g35060.1 (Oryza sativa), 3'ss of exon 5
gtacgcttctcatgactaacagttattttcatgtgaattcaca-tagcaattctaaagaagctaggatataaatgctctccttatgtatttgccttggtttggcagGTCATGAGTGTCAAAGCTCTTGGGATAGCCTTGAAGCTGACATTTTCTGGGATGAACCAGCTAGTCTATCCACAAACATGGGTGTTCTCATCCGTTGTAA
||| || | |||| | |||      | || ||  |  |||||| || |  |  ||       || | | ||||||   || || ||||     |||  | ||||||||||||||||||||||||||||||||||| ||||||||||||||||| |||||||||||||| || |||||||| |  |||||||||| |    ||||| 
gtatgcatgtcattaataat-----tcttgatacgttttcacaatatccttcttagtcggtttacggtgtaaatgaattcattctgtaaacttctttctctggcagGTCATGAGTGTCAAAGCTCTTGGGATAGCATTGAAGCTGACATTTTCAGGGATGAACCAGCTTGTTTATCCACAGATGTGGGTGTTCTTACTTTTTGTAG
















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|71301106|gb|DR786585.1|DR786585
EST:     CACATATCATGGTATATGTTGGCATATGTTCTCTTGTGGGATCTTTATCG                         GTCATGAGTGTCAAAGCTCTTGGGATAGCCTTGAAGCTGACATTTTCTGGG
genomic: CACATATCATGGTATATGTTGGCATATGTTCTCTTGTGGGATCTTTATCGgtacgcttct ... ggtttggcagGTCATGAGTGTCAAAGCTCTTGGGATAGCCTTGAAGCTGACATTTTCTGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaaagaagctaggatataaatgctctccttatgtatttgccttggtttggcagGTCATGAGTGTCAAAGCTCTTGGGATAGCCTTGAAGCTGACATTTTCTGGGATGAACCAGCTAGTCTATCCACAAACATGGGTGTTCTCATCCGTTGTAA
 ttctaaa  putative branch site (score: 2)
                              ttatgtattt  TA-rich tract