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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtgccgcatgtttcccccggttcctcttaccaccggttaatttatggtgagatttgaatctcatttcattttcccatttccatgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGTCGTTGCCGCATGTCTGTGTCGCCACGCTCACCTCGTTCCTCTTTGGATA

Basic information

species Zea mays
transcript GRMZM2G412899_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G412899_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g17500.1 (Oryza sativa), 3'ss of exon 2
gttcgtgccgcatgtttcccccggttcctcttaccaccggttaatttatggtgagatttgaatctcatttcattttcccatttccatgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGTCGTTGCCGCATGTCTGTGTCGCCACGCTCACCTCGTTCCTCTTTGGATA---------
|| |||||    | ||| | |   ||  | || ||  || ||  ||| ||| | | |  || | | |  |  ||||    | | |  |   || ||        || |    |||||   ||||| ||  |||||||||||||||||| ||||||| || || ||||||||||||||||| |||||||| || ||         
gtccgtgcacggttttttctct--ttttttttccctgcgatttttttttgg-gtggtgagattttgaggttttttttttctgtgctcggtggcggtttctgcagCGAA-AATGGCGG--ACGGCGGGGCCCCGTCGTGGCGCATGTCGCTGCCGCACGTGTGCGTCGCCACGCTCACCTCCTTCCTCTTCGGCTACCACTCCGG
















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|78087261|gb|DV515654.1|DV515654
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|101396771|gb|EB820311.1|EB820311
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|149026990|gb|EE046327.2|EE046327
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|211188618|gb|FL343312.1|FL343312
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|71775492|gb|DR973370.1|DR973370
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|148947449|gb|EC892877.2|EC892877
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|211528530|gb|FL329329.1|FL329329
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|148974492|gb|EE025275.2|EE025275
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|74240466|gb|DT648380.1|DT648380
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|71321131|gb|DR797264.1|DR797264
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|50326106|gb|CO521232.1|CO521232
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|78112346|gb|DV530740.1|DV530740
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|148935890|gb|EC879938.2|EC879938
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|76015720|gb|DT942890.1|DT942890
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|149104318|gb|EE289761.2|EE289761
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|78109755|gb|DV528171.1|DV528171
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|149015283|gb|EE045085.2|EE045085
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|71439810|gb|DR820860.1|DR820860
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|78110187|gb|DV528602.1|DV528602
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|71438358|gb|DR819408.1|DR819408
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|149095879|gb|EE181538.2|EE181538
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|71774118|gb|DR972000.1|DR972000
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|71764940|gb|DR962877.1|DR962877
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
EST: gi|148966112|gb|EE017056.2|EE017056
EST:     GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAA                         TGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT
genomic: GCGCGTGCCGTCCAGGGAAACCGCCATGGAACCCGACGTCGAGACGCCAAgttcgtgccg ... atgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatttatggtgagatttgaatctcatttcattttcccatttccatgtctgcagTGAGAATGACGGACGGCGGCGGCAGCGGCGCGGGGCCGTCGTGGCGCATGTCGTTGCCGCATGTCTGTGTCGCCACGCTCACCTCGTTCCTCTTTGGATA
 ggttaat  putative branch site (score: 4)
                                ttttcccatttccat  putative PPT
                          atttcatttt  TA-rich tract