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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcccaacagctgcatcgattgaatgaccaatgtagcttatccatgccttgacttgtcaactgctgcaacatttctggttttccggtgtgcctattgcagGTTCATCCTGTTCTTATGCTGATCGGCTACATTATCCTCGGCAGTGAAGGTAACAGCAACACAAAAATCAAACTCATTTTATTTCCATCTTCCATGTCTG

Basic information

species Zea mays
transcript GRMZM2G034668_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G034668_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g45090.2 (Oryza sativa), 3'ss of exon 1
ttcccaacagctgcatcgattgaatgaccaatgtagct---tatccatgccttgacttgtcaactgctgcaacatttctggttttccggtgtgcctattgcagGTTCATCCTGTTCTTATGCTGATCGGCTACATTATCCTCGGCAGTGAAGGTAACAGCAACACAAAAATCAAACTCATTTTATTTCCATCTTCCATGTCTG
||      |      ||||  |    || ||  ||      ||   ||| |  || |  |||  |     |||  ||  | | | | |  |||| || | |||||||| ||||||||||||||||| || ||||||||||||||||||||||                                                   
ttgattttattatggtcgaaagtggtactaacatactcatgtagttatgtcaagattcctcagttatgttaac--ttgggttctgctgtggtgcatact-cagGTTCACCCTGTTCTTATGCTGATTGGGTACATTATCCTCGGCAGTGAAG---------------------------------------------------
















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|38687936|gb|CK144967.1|CK144967
EST:     TCCGCGGCGGCCTCGCGCTCGAGGCACAGAACAAGAACCTCATCTTCAAC                         GTTCATCCTGTTCTTATGCTGATCGGCTACATTATCCTCGGCAGTGAAG
genomic: TCCGCGGCGGCCTCGCGCTCGAGGCACAGAACAAGAACCTCATCTTCAACgtaagcgcca ... cctattgcagGTTCATCCTGTTCTTATGCTGATCGGCTACATTATCCTCGGCAGTGAAG
EST: gi|211145326|gb|FL227340.1|FL227340
EST:     TCCGCGGCGGCCTCGCGCTCGAGGCACAGAACAAGAACCTCATCTTCAAC                         GTTCATCCTGTTCTTATGCTGATC
genomic: TCCGCGGCGGCCTCGCGCTCGAGGCACAGAACAAGAACCTCATCTTCAACgtaagcgcca ... cctattgcagGTTCATCCTGTTCTTATGCTGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccttgacttgtcaactgctgcaacatttctggttttccggtgtgcctattgcagGTTCATCCTGTTCTTATGCTGATCGGCTACATTATCCTCGGCAGTGAAGGTAACAGCAACACAAAAATCAAACTCATTTTATTTCCATCTTCCATGTCTG
 ccttgac  putative branch site (score: 4)
                      aacattt  TA-rich tract