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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtagagtggtgatgcctgcttttttttgttaattagtgatttatatgtatttctctatgtattcgtctacacaatgaactgatggttttcttttgatcagCTACCTTGTCGCAGCAGCCATTTTGCAGTGCTTGTGGAGCCTTTTGCTAGCCTTTGTCGACATTTATGCACTTCTTGTCAAGCGATCGTTGAGAAATGCC

Basic information

species Zea mays
transcript GRMZM2G136901_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G136901_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g20250.1 (Oryza sativa), 3'ss of exon 1
---gtagagtggtgatgcctgcttttttttgttaattagtgatttatatgtatttctctatgtattcgtctacacaatgaactgatggttttcttttgatcagCTACCTTGTCGCAGCAGCCATTTTGCAGTGCTTGTGGAGCCTTTTGCTAGCCTTTGTCGACATTTATGCACTTCTTGTCAAGCGATCGTTGAGAAATGCC
    |  | |  | ||     | |  ||  ||    ||  |||  | | |  ||  ||  |   |   |  |   | | |  || |  | || ||| |  ||| |||||||| ||||||||||| ||||| ||||||||||||||||  |||||| |||| || ||||||||||||||||| ||||| || ||| | ||| | 
ttcattta-tcttcattgtgacatacttcggtaccataaagatccaaa-gctttcttcagtaagtcactaaatttactaatgtggttctatt-tttggtccagTTACCTTGTTGCAGCAGCCATCTTGCAATGCTTGTGGAGCCTTTCACTAGCCGTTGTTGATATTTATGCACTTCTTGTGAAGCGTTCTTTGCGGAATCCA
















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|211372489|gb|FL433669.1|FL433669
EST:     TTTGAAATAGAGGATGAGATAGCAGATCTGCTGGAGATGGCCTTAATATG                         CTACCTTGTCGCAGCAGCCATTTTGCAGTGCTTGTGGAGCCTTTTGCTAGC
genomic: TTTGAAATAGAGGATGAGATAGCAGATCTGCTGGAGATGGCCTTAATATGgtacatataa ... ttttgatcagCTACCTTGTCGCAGCAGCCATTTTGCAGTGCTTGTGGAGCCTTTTGCTAGC
EST: gi|211462304|gb|FL096438.1|FL096438
EST:     TTTGAAATAGAGGATGAGATAGCAGATCTGCTGGAGATGGCCTTAATATG                         CTACCTTGTCGCAGCAGCCATTTTGCAGTGCTTGTGGAGCCTTTTGCTAGC
genomic: TTTGAAATAGAGGATGAGATAGCAGATCTGCTGGAGATGGCCTTAATATGgtacatataa ... ttttgatcagCTACCTTGTCGCAGCAGCCATTTTGCAGTGCTTGTGGAGCCTTTTGCTAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatttctctatgtattcgtctacacaatgaactgatggttttcttttgatcagCTACCTTGTCGCAGCAGCCATTTTGCAGTGCTTGTGGAGCCTTTTGCTAGCCTTTGTCGACATTTATGCACTTCTTGTCAAGCGATCGTTGAGAAATGCC
                               aactgat  putative branch site (score: 3)
                                        ttttctttt  putative PPT
                                        ttttctttt  TA-rich tract