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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgaagcgggcaacaagttacctatgtgacaagaatacctaattgtcagattagatcttgagtattttatgtttctatgcagAGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGAACTGCTCACTCAGTATGTCAGTAACTGAGTGGTTTCTAACATTATTCTT

Basic information

species Zea mays
transcript GRMZM2G013625_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013625_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g47262.2 (Oryza sativa), 3'ss of exon 4
-----------------------gtaagt--gaagcgggcaacaagttacctatgtgacaagaatacctaattgtcagattagatcttgagtattttatgtttctatgcagAGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGAACTGCTCACTCAGTATGTCAGTAACTGAGTGGTTTCTAACATTATTCTT
                       ||| ||  |   |    ||    || || || ||| ||  ||||||| || |    ||  ||  ||| | ||  ||| |||| ||||||| ||||| ||||| | ||| || |||||||| |||||||||||||||| ||||||||| ||                                      
gtaagtcccttttagatgaatttgtaggttcgcttcacaaaatggtttgccaatatgataatcatacctatttttggatttgcattgtga-tcttcaatgcttctttgcagAGAGATGGGACTTACTATGTGACTATGTTGATCATACCAAAGCAAGAAGCAACTGCTCATTCT-------------------------------------
















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|28985740|gb|CB350792.1|CB350792
EST:     AGAATACAAGCAATAATCTAGAGACTTGTGGAATTCTTGGTGCTTCATTT                         AGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGA
genomic: AGAATACAAGCAATAATCTAGAGACTTGTGGAATTCTTGGTGCTTCATTTgtaagtgaag ... ttctatgcagAGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGA
EST: gi|18174374|gb|BM349762.1|BM349762
EST:     AGAATACAAGCAATAATCTAGAGACTTGTGGAATTCTTGGTGCTTCATTT                         AGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGA
genomic: AGAATACAAGCAATAATCTAGAGACTTGTGGAATTCTTGGTGCTTCATTTgtaagtgaag ... ttctatgcagAGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGA
EST: gi|18174779|gb|BM350167.1|BM350167
EST:     AGAATACAAGCAATAATCTAGAGACTTGTGGAATTCTTGGTGCTTCATTT                         AGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGA
genomic: AGAATACAAGCAATAATCTAGAGACTTGTGGAATTCTTGGTGCTTCATTTgtaagtgaag ... ttctatgcagAGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGA
EST: gi|18164149|gb|BM333988.1|BM333988
EST:     AGAATACAAGCAATAATCTAGAGACTTGTGGAATTCTTGGTGCTTCATTT                         AGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGA
genomic: AGAATACAAGCAATAATCTAGAGACTTGTGGAATTCTTGGTGCTTCATTTgtaagtgaag ... ttctatgcagAGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacaagaatacctaattgtcagattagatcttgagtattttatgtttctatgcagAGGGATGGAACTTATTTTGTCACGATGTTGATTATACCAAAGCAAGAAGGAACTGCTCACTCAGTATGTCAGTAACTGAGTGGTTTCTAACATTATTCTT
         acctaat  putative branch site (score: 3)
                                          tgtttct  putative PPT
                                   tattttatgtttctat  TA-rich tract