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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcgacattcagataaagtaggggattacctatctttaatattttctagttgctcccatctttctttgatttcagcttattttgctattgttctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATAACTAAATTAGTAGTTGACCCAATGCTTTCTTTTGTTACTAAG

Basic information

species Zea mays
transcript GRMZM5G825854_T02
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G825854_T01 (Zea mays), 3'ss of exon 21
lower sequence: LOC_Os08g34970.1 (Oryza sativa), 3'ss of exon 21
gcgacattcagataaagtaggggatta-cctatctttaatattttctagttgctcccatct----ttctttgat-----ttcagcttattttgctattgtt-ctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATAACTAAATTAGTAGTTGACCCAATGCTTTCTTTTGTTACTAAG
           ||||| || || |  |  |||   | | |  ||| ||| ||| |  |||     || ||| ||     ||||||| |||||| || |  |  | |||||||| ||||| |||||||| ||| |||||||||||||||||||||||||||| || ||||||||||| || ||||||||||||||||||||||||
-----------ataaaataaggcagcagtctaatgtgattgctttgtagatgcccatatcctcgattttttaatattttttcagctaattttgttactactattttttcagGAATTGGAAAAAAGCCTCAAATCTACCTGTGAAGAGTTTATAATGTCCATTACAAAATTAGTAGTGGATCCAATGCTTTCTTTTGTTACTAAG

upper sequence: GRMZM5G825854_T01 (Zea mays), 3'ss of exon 21
lower sequence: Vv11s0016g00350.t01 (Vitis vinifera), 3'ss of exon 22
----gcgacattcagataaagtaggggattacctatctttaatattttctagttgctcccatctttctttgatttcagcttattttgctattgttctattt-cagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATAACTAAATTAGTAGTTGACCCAATGCTTTCTTTTGTTACTAAG
      || |||  |   | ||| |   |   | || | |   |     | | ||        |  | |  | |  | | |   |    |||| | ||||| |||||  ||||||||||||| ||||| || ||||| |||||||| |||||  | |||||  |||| || || || |||||||| ||||||||||||
atattagaaatttggtgtacgtatgaagtgcacaatttgttggaccaatttgatgtgt-----tgccatgcaatgtaacatgggtgatcattggtttatttgcagGAACTGGAGAAAAGCCTCAAAGCCACTTGTGAGGAGTTTATTATGTCGGTCACTAAGCTAGTTGTGGATCCCATGCTTTCATTTGTTACTAAG
















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|37383203|gb|CF628592.1|CF628592
EST:     CTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
genomic: CTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
EST: gi|32832225|gb|CD971903.1|CD971903
EST:     CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
genomic: CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
EST: gi|86468964|gb|DY235334.1|DY235334
EST:     CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
genomic: CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
EST: gi|93281266|gb|EB673530.1|EB673530
EST:     AACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
genomic: AACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
EST: gi|60348401|gb|DN215374.1|DN215374
EST:     CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
genomic: CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
EST: gi|32929996|gb|CF034808.1|CF034808
EST:     CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
genomic: CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
EST: gi|6102001|gb|AW126471.1|AW126471
EST:     CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
genomic: CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
EST: gi|32931787|gb|CF036599.1|CF036599
EST:     CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCTATA
genomic: CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
EST: gi|60348441|gb|DN215414.1|DN215414
EST:     CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
genomic: CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
EST: gi|60341619|gb|DN208592.1|DN208592
EST:     CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
genomic: CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
EST: gi|149104240|gb|EE289676.2|EE289676
EST:     CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAA                         GAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA
genomic: CTAGGACCTTTTCTCCTCGTGTTTTGGAGAACCAAATTGATGCCAGAAAAgtaactaact ... tctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagttgctcccatctttctttgatttcagcttattttgctattgttctatttcagGAGTTGGAGAAAAGCCTTAAAGCTACCTGTGAAGAGTTTATAATGTCCATAACTAAATTAGTAGTTGACCCAATGCTTTCTTTTGTTACTAAG
                 ctttgat  putative branch site (score: 5)
                                            ttctatttc  putative PPT
                              ttatttt  TA-rich tract