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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatactgtagcaatggattagttagtagtactcaacatttgtttttgccaaagaaagctttgcttgtacaccttgtttgataaatatttgtatataacttaacaattcttttttcagGACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGAGATGTTGAGTTCAAAGCTTTGCTCTTTATCCCCCCGAAGGCTCCACATG

Basic information

species Zea mays
transcript GRMZM2G141931_T03
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141931_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g50300.1 (Oryza sativa), 3'ss of exon 9
--gtaaatactgtagcaatggattagttagtagtactcaacatttgtttttgccaaagaaagctttgcttgtacaccttgtttgataaatatttgtatataacttaacaattcttttttcagGACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGAGATGTTGAGTTCAAAGCTTTGCTCTTTATCCCCCCGAAGGCTCCACATG
    | | |||| ||  ||| |||   ||   |  |  |||||||  | |         |||| ||||      |           || ||     || |||  || ||| |  ||||  ||||||| ||||||||||||||  ||  |||||||||||||||||| || |||||||||||||||||||||||||||||| | || || |||||||||||||
gtacacagactgcagtgatgaatt---tacaggagcataacattttatgt---------aagccttgcagaagaa--------agcaagtaacctcatttaa--tatcaaattattttgtagGACTTTGGTGATGACAAGCCCTTGTCTTGGAGCCACTTCACTGCTGAGGGAGATGTTGAGTTCAAAGCTTTGCTCTTTGTTCCTCCCAAGGCTCCACATG
















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|31354312|gb|CD438669.1|CD438669
EST:     ATTCACTAGCCAAG                         GACTTCGGTGATGACAAGCCTACGTGTTGGAGCCACTTCACTGCCGAAGGA
genomic: ATTCACTAGCCAAGgtaaatactg ... cttttttcagGACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGA
EST: gi|67017884|gb|CO446633.1|CO446633
EST:     AGGAGGTTACCGATGAAGAATACTCGAAGTTTTACCATTCACTAGCCAAG                         GACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGA
genomic: AGGAGGTTACCGATGAAGAATACTCGAAGTTTTACCATTCACTAGCCAAGgtaaatactg ... cttttttcagGACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGA
EST: gi|60344141|gb|DN211114.1|DN211114
EST:     GGAGGTTACCGAGGAAGGAATACTCGAAGTTTTCCCATTCACTAGCCAAG                         GACTTCGGGGATGACAAGCTTATGGGTTGGAGCCACTTCACTGCCGAAGGA
genomic: GGAGGTTACCGATGAA-GAATACTCGAAGTTTTACCATTCACTAGCCAAGgtaaatactg ... cttttttcagGACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGA
EST: gi|21987199|gb|BQ778727.1|BQ778727
EST:     AGGAGGTTACCGATGAAGAATACTCGAAGTTTTACCATTCACTAGCCAAG                         GACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGA
genomic: AGGAGGTTACCGATGAAGAATACTCGAAGTTTTACCATTCACTAGCCAAGgtaaatactg ... cttttttcagGACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGA
EST: gi|21987561|gb|BQ779089.1|BQ779089
EST:     AGGAGGTTACCGATGAAGAATACTCGAAGTTTTACCATTCACTAGCCAAG                         GACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGA
genomic: AGGAGGTTACCGATGAAGAATACTCGAAGTTTTACCATTCACTAGCCAAGgtaaatactg ... cttttttcagGACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGA
EST: gi|67040100|gb|CO466355.1|CO466355
EST:     AGGAGGTTACCGATGAAGAATACTCGAAGTTTTACCATTCACTAGCCAAG                         GACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGA
genomic: AGGAGGTTACCGATGAAGAATACTCGAAGTTTTACCATTCACTAGCCAAGgtaaatactg ... cttttttcagGACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtacaccttgtttgataaatatttgtatataacttaacaattcttttttcagGACTTCGGTGATGACAAGCCTATGGGTTGGAGCCACTTCACTGCCGAAGGAGATGTTGAGTTCAAAGCTTTGCTCTTTATCCCCCCGAAGGCTCCACATG
                                  acttaac  putative branch site (score: 3)
                                           ttcttttttc  putative PPT
             tttgataaatatttgt  TA-rich tract