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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttttgatttctggccaataattcttttgtcatgaactcatggttgcaacttgacctaggcttaatatttgggctcaccaaaacatgcctttctcgactttttccagGTTATGTTCGACATGGGTCCGCCAATAAGCAGGGAGGTTCAGCTTGTTTCTTTCCACACTGTGTCCAAAGGGTACTGGGGAGAGTGTGGACAACGTGGTG

Basic information

species Zea mays
transcript GRMZM5G840582_T03
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G840582_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os07g01760.1 (Oryza sativa), 3'ss of exon 6
gtacttttgatttctggccaataattcttttgtcatgaactcatggttgcaacttgacctaggcttaatatttgggctcaccaaaacatgcctttctcgactttttccagGTTATGTTCGACATGGGTCCGCCAATAAGCAGGGAGGTTCAGCTTGTTTCTTTCCACACTGTGTCCAAAGGGTACTGGGGAGAGTGTGGACAACGTGGTG
         ||  ||     || | | | |   |    | | ||   |   |       ||  || | | |    ||| |    ||||||   ||    | ||| | |||||| |||| ||||||||||| || || |||||||| |||||||| ||||||||||| |||||||| ||||| || ||||| ||||||||||||||||| |
---------ataactaatacatgagtttatgccctaatattgattactttgatcaattgtaaact-attctgattgctgatgttaacatggactttctcaatttcttcagGTTCTGTTTGACATGGGTCCTCCTATGAGCAGGGAAGTTCAGCTGGTTTCTTTCCATACTGTGTCAAAAGGATATTGGGGGGAGTGTGGACAACGTGGAG

upper sequence: GRMZM5G840582_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv00s0225g00130.t01 (Vitis vinifera), 3'ss of exon 8
gtacttttgatttctggccaataattcttttgtcatgaactcatggttgcaacttgacctaggcttaatatttgggctcaccaaaacatgcctttctcgactttttccagGTTATGTTCGACATGGGTCCGCCAATAAGCAGGGAGGTTCAGCTTGTTTCTTTCCACACTGTGTCCAAAGGGTACTGGGGAGAGTGTGGACAACGTGGTG
                |        | || ||  || |||| ||   ||   ||| |||| |     ||  |||   | |    | |||   || ||| |    |   ||||| || | |||||||| || || ||||||| |||| | |||||||||||||||||||| || || ||||| || ||||| || |||||||| |||||||
----------------gtatggcgctgttatgaaattaact-attcctgggtctttacctggagactat-cttgaatttat---accatattttcctccaaccctgaaagGTTTTGATGGACATGGGCCCACCCATAAGCAAGGAGCTCCAGCTTGTTTCTTTCCACACAGTCTCTAAAGGATATTGGGGTGAATGTGGACAGCGTGGTG
















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|7216933|gb|AW563070.1|AW563070
EST:     ATCAGCAGAACGTTTATCAAGATGAGCGCCCATTTATAAGCGCAAGAAAG                         GTTATGTTCGACATGGGTCCGCCAATAAGCAGGGAGGTTCAGCTTGTTTCT
genomic: ATCAGCAGAACGTTTATCAAGATGAGCGCCCATTTATAAGCGCAAGAAAGgtacttttga ... ctttttccagGTTATGTTCGACATGGGTCCGCCAATAAGCAGGGAGGTTCAGCTTGTTTCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacctaggcttaatatttgggctcaccaaaacatgcctttctcgactttttccagGTTATGTTCGACATGGGTCCGCCAATAAGCAGGGAGGTTCAGCTTGTTTCTTTCCACACTGTGTCCAAAGGGTACTGGGGAGAGTGTGGACAACGTGGTG
                   ggctcac  putative branch site (score: 3)
                                   cctttctcgacttttt  putative PPT
         ttaatattt  TA-rich tract