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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaggacctattccgggagaaataactattgataggtttaacctccaagtgaaggaaggaggcatggagcagtttctttgtgaatccaaacatattctgtaaaagcgctctttaaagtgtccttacttgaagtgcagGTGATGGAAAAGAGCAATTTTAACATAGTAAATGACGATGAGGTTGAACTTGCTCATTCTGGACAATATCTGTTGAATCTTCCCATTAAAGTTGATGAAT

Basic information

species Zea mays
transcript GRMZM2G161168_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G161168_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g70390.1 (Oryza sativa), 3'ss of exon 3
gtaaaggacctattccgggagaaataactattgataggtttaacctccaagtgaaggaaggaggcatg----gagcagtttctttgtgaatccaaacatattctgtaaaagcgctctttaaagtgtccttacttgaagtgcagGTGATGGAAAAGAGCAATTTTAACATAGTAAATGACGATGAGGTTGAACTTGCTCATTCTGGACAATATCTGTTGAATCTTCCCATTAAAGTTGATGAAT
|||||  | || ||  ||||||   ||||||| ||| || | | || ||  |||| ||    |  ||      |  ||| |      | | ||| | |||| |   || |   | |  |||| |||    | |    |||||||||||| |||| |||||||| |||||| ||   || ||||||||||| |||||||||||||||||||||||| ||||||||||||| |||||||||||| 
gtaaacaaactgttt-gggagatggaactatt-atatgtctcaactacacatgaatgatcaggatatttcttaataagtattacaagggacccagatatatcc-acaatattacacaataaattgtatgaaatcttggtgcagGTGATGCAAAAAAGCAATTTCAACATATTATCAGATGATGAGGTTGAGCTTGCTCATTCTGGACAATATCTGCTGAATCTTCCCATCAAAGTTGATGAAG

upper sequence: GRMZM2G161168_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 3
gtaaaggacctattccgggagaaataactattgataggtttaacctccaagtgaaggaaggaggcatggagcagtttctttgtgaatccaaac---atattctgtaaaagcgctctttaaagtgtccttacttgaagtgcagGTGATGGAAAAGAGCAATTTTAACATAGTAAATGACGATGAGGTTGAACTTGCTCATTCTGGACAATATCTGTTGAATCTTCCCATTAAAGTTGATGAAT
                                         | ||| |||    |  ||   ||  ||    |  |  ||  | |   || ||   ||||| | |   |       | ||  |      | |     |  |||| |||||||||||||| || || ||||| | ||| |||||| ||||  |||| ||||| || ||||||||  | |||||||||||||  ||||||||||
----------------------------------------aatccttcaaagtgactaatttgg--tgacataaatatttgataacatcagactgaatattgtttcttaagttatctgaagatacttcgattctttatatagGTCATGGAAAAGAGCAACTTCAAGATAGTGACTGATGATGAGATTGATGTTGCACATTCAGGCCAATATCTTCTAAATCTTCCCATTACTGTTGATGAAT
















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|71426968|gb|DR808018.1|DR808018
EST:     CTGAGGAAATCGACACGCTTGAGCAGAACTTCCTGTCCTATTTCTTTCGG                         GTGATGGAAAAGAGCAATTTTA
genomic: CTGAGGAAATCGACACGCTTGAGCAGAACTTCCTGTCCTATTTCTTTCGGgtaaaggacc ... tgaagtgcagGTGATGGAAAAGAGCAATTTTA
EST: gi|26557524|gb|CA829759.1|CA829759
EST:     CTGAGGAAATCGACACGCTTGAGCAGAACTTCCTGTCCTATTTCTTTCGG                         GTGATGGAAAAGAGCAATTTTAACATAGTAAATGACGATG
genomic: CTGAGGAAATCGACACGCTTGAGCAGAACTTCCTGTCCTATTTCTTTCGGgtaaaggacc ... tgaagtgcagGTGATGGAAAAGAGCAATTTTAACATAGTAAATGACGATG
EST: gi|93015466|gb|EB640986.1|EB640986
EST:     CTGAGGAAATCGACACGCTTGAGCAGAACTTCCTGTCCTATTTCTTTCGG                         GTGATGGAAAAGAGCAATTTTAACATAGTAAATGACGATGAGGTTGAACTT
genomic: CTGAGGAAATCGACACGCTTGAGCAGAACTTCCTGTCCTATTTCTTTCGGgtaaaggacc ... tgaagtgcagGTGATGGAAAAGAGCAATTTTAACATAGTAAATGACGATGAGGTTGAACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatccaaacatattctgtaaaagcgctctttaaagtgtccttacttgaagtgcagGTGATGGAAAAGAGCAATTTTAACATAGTAAATGACGATGAGGTTGAACTTGCTCATTCTGGACAATATCTGTTGAATCTTCCCATTAAAGTTGATGAAT
                                     tccttac  putative branch site (score: 2)
                                     tccttactt  CT-rich tract
     aaacatatt  TA-rich tract