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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataattcatttcagaattaataaattatttattttacccataggtttatatcaggaaattaataaaaaactagccttttcatattataatttgttttcttatcatttgacactggcatttttttatcagGTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAG

Basic information

species Zea mays
transcript GRMZM2G168249_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G168249_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g08790.1 (Oryza sativa), 3'ss of exon 8
gtaataattcatttcagaatt-----aataaattatttattttac---ccataggtttatatcaggaaattaataaaaaactagcctt---------ttcatattataatttgttttcttatcatttgacact---ggcatttttttatcagGTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAG
|||||||||  |  | |||       | ||  | |   |||||     | || | ||   |   |  ||||  |  | |  | |  ||         ||  | |||  || |   ||| | |   |||||| |   |  | | |||| ||||||| |||||||||||||||||||||| ||||  ||||||||||| |||||||| ||||
gtaataatttgtagctgaacctgttgagtagttcagcaattttgtattctattgtttggaaaatgataattgtttgatatttcgttttgtttgtcactttgttttaccatgtagattcatgttcattgacatttgagctaatgttttgtcagGTGCTGTATAACATTCTTGACTGGCCCACCAGGCCAAATTCAAACCTAGTTGTCATAG
















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|30052379|gb|AI065668.2|AI065668
EST:     TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCG                         GTGTTGTATAACATTCTTGACTGGCCTA
genomic: TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCGgtaataattc ... tttttatcagGTGTTGTATAACATTCTTGACTGGCCTA
EST: gi|32931679|gb|CF036491.1|CF036491
EST:     TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCG                         GTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTT
genomic: TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCGgtaataattc ... tttttatcagGTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTT
EST: gi|60348765|gb|DN215738.1|DN215738
EST:     TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCG                         GTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTT
genomic: TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCGgtaataattc ... tttttatcagGTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTT
EST: gi|211040609|gb|FL332006.1|FL332006
EST:     TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCG                         GTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTT
genomic: TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCGgtaataattc ... tttttatcagGTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTT
EST: gi|60344624|gb|DN211597.1|DN211597
EST:     TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCG                         GTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTT
genomic: TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCGgtaataattc ... tttttatcagGTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTT
EST: gi|31354612|gb|CD438969.1|CD438969
EST:     TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCG                         GTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTT
genomic: TTGTTTTGCTGATCGATGAACTTGATCTTCTTATGACAAGAAACCAATCGgtaataattc ... tttttatcagGTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttcatattataatttgttttcttatcatttgacactggcatttttttatcagGTGTTGTATAACATTCTTGACTGGCCTACCAAACCAAATTCAAATCTAGTTGTTATAG
                             atttgac  putative branch site (score: 4)
                                           tttttttatc  putative PPT
      atattataatttgttt  TA-rich tract