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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttttttagtatagtgctgttcacgtattttaatttgtatctttcatgttacacctctctaacaacagcatcaaactctgaactttttattactttggttttattctgtagACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTGCATTGGGTTCTGCTAGGGGCCTGTCTTATTTACATGATCATTGTGATCC

Basic information

species Zea mays
transcript GRMZM2G384439_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G384439_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os08g07760.1 (Oryza sativa), 3'ss of exon 9
gtatttttttagtatagtgctgttcacgtattttaatttgtatctttc--atgttacacctctctaacaacagcatcaaactctgaactttttattactttggttttattctgtagACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTGCATTGGGTTCTGCTAGGGGCCTGTCTTATTTACATGATCATTGTGATCC
                           |||  ||   || | | ||||  || | ||| | || || |      || |     || |   || |||   | ||||||||  | |||| || |||||| | |||||||| || ||||||| |||||||  ||||||||| |||||||| || ||||| ||||| |||||||||||||||||||| ||
---------------------------gtacgttgccttttttttttccaatctgacatccctgtatctttcagataa----ttggagggttgatt---tgggttttatattatagAACGGCCACCATCGGAACCTCCACTTGATTGGCGAACAAGAAGAAGGATTGCGTTGGGTTCCGCCAGGGGGCTGTCCTATTTACATGATCATTGTGACCC
















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|33770769|gb|CF273063.1|CF273063
EST:     GCTTGTGCATCCATACATGGCTAATGGAAGTGTTGCGTCACGTTTAAGAG                         ACCGACCACCAGCTGAACCTCCGCTAGATCGGCAAACAAGACAAAGGATTG
genomic: GCTTGTGTATCCATACATGGCTAATGGAAGTGTTGCGTCACGTTTAAGAGgtattttttt ... tattctgtagACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTG
EST: gi|211390607|gb|FL418016.1|FL418016
EST:     GCTTGTGTATCCATACATGGCTAATGGAAGTGTTGCGTCACGTTTAAGAG                         ACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTG
genomic: GCTTGTGTATCCATACATGGCTAATGGAAGTGTTGCGTCACGTTTAAGAGgtattttttt ... tattctgtagACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTG
EST: gi|26558051|gb|CA830286.1|CA830286
EST:     GCTTGTGTATCCATACATGGCTAATGGAAGTGTTGCGTCACGTTTAAGAG                         ACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTG
genomic: GCTTGTGTATCCATACATGGCTAATGGAAGTGTTGCGTCACGTTTAAGAGgtattttttt ... tattctgtagACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTG
EST: gi|211529764|gb|FL372711.1|FL372711
EST:     GCTTGTGTATCCATACATGGCTAATGGAAGTGTTGCGTCACGTTTAAKAG                         ACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTG
genomic: GCTTGTGTATCCATACATGGCTAATGGAAGTGTTGCGTCACGTTTAAGAGgtattttttt ... tattctgtagACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTG
EST: gi|211060470|gb|FL406475.1|FL406475
EST:     GCTTGTGTATCCATACATGGCTAATGGAAGTGTTGCTTCACGTTTAAGAG                         ACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACWAGACAAAGGATTG
genomic: GCTTGTGTATCCATACATGGCTAATGGAAGTGTTGCGTCACGTTTAAGAGgtattttttt ... tattctgtagACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctaacaacagcatcaaactctgaactttttattactttggttttattctgtagACCGACCACCAGCTGAACCTCCGCTAGATTGGCAAACAAGACAAAGGATTGCATTGGGTTCTGCTAGGGGCCTGTCTTATTTACATGATCATTGTGATCC
 ctctaac  putative branch site (score: 2)
                                          ttttattct  putative PPT
                           tttttattactttggt  TA-rich tract