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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaacctagaacttccttgtaccgagtggcaaatgttttgagtctttaagatgactaattttcttattttcctcttggcctttttcacatatcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTCGTTTTATAGCTTCAAGACAAACACATACAAACTGAACTTTACGGAGAGC

Basic information

species Zea mays
transcript GRMZM2G010146_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G010146_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g33020.1 (Oryza sativa), 3'ss of exon 1
gaacctagaacttccttgtaccgagtggcaaatgttttgagtct---ttaagatgactaattttcttattttcctcttggcctttttcacatatcaa-atgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTCGTTTTATAGCTTCAAGACAAACACATACAAACTGAACTTTACGGAGAGC
   || |  |  |  ||   |    ||   |||    ||| |||   || || | |  ||| || | | | | ||| ||  |  | |  || ||||  |||||| ||||||||||| |||||||| |||||||||||||| ||||| ||||| || ||||| |||||||||||||||||||||||| |||||||    ||||||
-tgcccacgagattgttac-cattttgatgaattaggtgaatctaaattgagcttaa-aatgttatcagtgttctcatgatcactct-gcacatcactatgcagAGCAGAAAAGGGGAATCTTGGGGTGCCACTACTGCCGGGCCAGGGTTGCTCATTTTACAGCTTCAAGACAAACACATACAAATTGAACTTCCTAGAGAGC
















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|14243987|gb|BG841705.2|BG841705
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|94477699|gb|EB706657.1|EB706657
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         ---A-AAA-GGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|148932965|gb|EE285816.2|EE285816
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|93284352|gb|EB676616.1|EB676616
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|71425314|gb|DR806606.1|DR806606
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|71436637|gb|DR817687.1|DR817687
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|71434336|gb|DR815386.1|DR815386
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|71316463|gb|DR794909.1|DR794909
EST:     GGCTCCTCTTCTCCCTTCGCTCCTTCACCCGCCA-GATCGACCCAACCAC                         GGCAGAAAAGGGAA
genomic: GGCTCCTCTTCTCCCTTCGCTCCTTCACC-GCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAA
EST: gi|76930392|gb|DV172364.1|DV172364
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|74238223|gb|DT646137.1|DT646137
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|76292672|gb|DV032240.1|DV032240
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCC
EST: gi|78118287|gb|DV536673.1|DV536673
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|78083968|gb|DV512361.1|DV512361
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|148944695|gb|EC889832.2|EC889832
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|71302504|gb|DR787370.1|DR787370
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|91872814|gb|EB402771.1|EB402771
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|71316462|gb|DR794908.1|DR794908
EST:     GACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|148930227|gb|EC872669.2|EC872669
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|101393644|gb|EB818754.1|EB818754
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|211038846|gb|FL245342.1|FL245342
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|76918988|gb|DV167546.1|DV167546
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
EST: gi|71436489|gb|DR817539.1|DR817539
EST:     GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCAC                         GGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC
genomic: GGGCTCCTCTTCTCCCTTCGCTCCTTCACCGCCAAGATCGACCCAACCACgtacgtccta ... tcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagatgactaattttcttattttcctcttggcctttttcacatatcaaatgcagGGCAGAAAAGGGAAATCTTGGTGTGCCACTACTGCCAGGCCAAGGTTGTTCGTTTTATAGCTTCAAGACAAACACATACAAACTGAACTTTACGGAGAGC
      gactaat  putative branch site (score: 2)
       actaattttcttattt  TA-rich tract