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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcagaaaatgtccatatcagttgtatagttactaaggtgttggcaagtatagaccagccatgcatgttgttcttgcagGTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGGTTGATAAGTTGTGCCTCCTTGCACAATCCTCGTGCCTATCAGGACTTCTGCTA

Basic information

species Zea mays
transcript GRMZM2G472023_T02
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G472023_T02 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os02g54280.1 (Oryza sativa), 3'ss of exon 16
gttagcagaaaatg--tccatatcagttgtatagttactaaggt--gttggcaagtatagaccagccatgcatgttgttcttgcagGTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGGTTGATAAGTTGTGCCTCCTTGCACAATCCTCGTGCCTATCAGGACTTCTGCTA
||| ||  | | |   || ||  | |||| |||  || |  |    | ||   |||  | |  |   ||     |  |   ||||||||||| |||||||||||||||||||||||||||||||||||||||| ||||||| |||| || |||||||||||||| ||| |||||||| ||||||||
gttcgctaacatttgttcaattactgttg-atacctattgggaatagatgtgcagtg-aaataatggatagccatcatcactgcagGTTTTCGGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGGCTGATAAGCTGTGTCTACTTGCACAATCCTCATGCTTATCAGGATTTCTGCTA

upper sequence: GRMZM2G472023_T02 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os02g54170.1 (Oryza sativa), 3'ss of exon 6
gttagcagaaaatgtccatatcagttgt-atagttactaag-------gtgttggcaagta-tagaccagccatgcatgttgttcttgcagGTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGGTTGATAAGTTGTGCCTCCTTGCACAATCCTCGTGCCTATCAGGACTTCTGCTA
||| ||| | | |      |||| |  | |||  || || |       |||  |  || || | ||  ||||||  || |  |   |||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||| ||||  | |||||||||||||| ||| |||||||| ||||||||
gttcgcaaacatttgttcaatcattgttgatacctattaggaatagatgtgcagtgaaataatggatgagccatatatctcatcactgcagGTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAGTAAGTTAATGGTTGATAAGCTGTGTGTACTTGCACAATCCTCATGCTTATCAGGATTTCTGCTA
















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|22546386|gb|BU098697.1|BU098697
EST:     TCTAGCAATACAATGCTTAACCTTCTATCCAAACTTGCATCTCTCACAAG                         GTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGGTTGA
genomic: TCTAGCAATACAATGCTTAACCTTCTATCCAAACTTGCATCTCTCACAAGgttagcagaa ... gttcttgcagGTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGGTTGA
EST: gi|22545547|gb|BU097906.1|BU097906
EST:     TCTAGCAATACAA-GCTTAACCTTCTATCCAAACTTGCATCTCTCACAAG                         GTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGG-TGA
genomic: TCTAGCAATACAATGCTTAACCTTCTATCCAAACTTGCATCTCTCACAAGgttagcagaa ... gttcttgcagGTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGGTTGA
EST: gi|211497818|gb|FL217202.1|FL217202
EST:     TCTAGCAATACAATGCTTAACCTTCTATCCAAACTTGCATCTCTCACAAG                         GTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGGTTGA
genomic: TCTAGCAATACAATGCTTAACCTTCTATCCAAACTTGCATCTCTCACAAGgttagcagaa ... gttcttgcagGTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGGTTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatagttactaaggtgttggcaagtatagaccagccatgcatgttgttcttgcagGTTTTCAGAACTAAGCCTGACTGGTATAAAACTGAATAAGTTAATGGTTGATAAGTTGTGCCTCCTTGCACAATCCTCGTGCCTATCAGGACTTCTGCTA
                                           ttgttctt  CT-rich tract
     ttactaa  TA-rich tract