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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTGATTTAAGGGACTGGCATGAGTTTCCACAGTGGAAGCCCCAGGGTTTGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttataagggtgatttacatgcccatttagtgtgttctcttaacctggaagtgtgttaatcaagtaaccttgcttcagttacatacttcgatccac...

Basic information

species Zea mays
transcript GRMZM2G495626_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G495626_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g67160.1 (Oryza sativa), 5'ss of exon 6
GAGTGATTTAAGGGACTGGCATGAGTTTCCACAGTGGAAGCCCCAGGGTTTGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttataagggtgat-ttacatgcccatttagtgtgttctcttaacctggaagtgtgttaatcaagt--aaccttgcttcagttacata-cttcgatccac
 | |||||| |||||||||||||||||||||||||||||||| |||  ||| | ||||   |||||| || |||| |||||||||||||||||| ||||||||||  |   |    ||  |   |  |||||| ||   |  ||  ||      ||  ||| |   || |  ||  |  |   | ||  ||| |||| |     
AACTGATTTGAGGGACTGGCATGAGTTTCCACAGTGGAAGCCACAGATTTTAGAACGTCAAGTCCCATCATTGGAGCCTGAAGGAGTTGACCTTTTATCGgtaagaaaactgatctatactggttttccattttgtcactattcgaaattatttaggctgtaagataatttgaagttctccctaatttaatagcttcaaa----
















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|71431608|gb|DR812658.1|DR812658
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|94473281|gb|EB702239.1|EB702239
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|213167909|gb|FM191321.1|FM191321
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|30306650|gb|CD001323.1|CD001323
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|71450236|gb|DR831286.1|DR831286
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|5686848|gb|AI939762.1|AI939762
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|94473655|gb|EB702613.1|EB702613
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|88755349|gb|DY539490.1|DY539490
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|87155782|gb|DY400571.1|DY400571
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|50328765|gb|CO523891.1|CO523891
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|5005601|gb|AI711663.1|AI711663
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|74238746|gb|DT646660.1|DT646660
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|29947506|gb|CB816691.1|CB816691
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|18178648|gb|BM379858.1|BM379858
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|213190990|gb|FM191595.1|FM191595
EST:     ACGTGTCGTCCCAACACTGGAACCTNNNGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: ACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|31558281|gb|CD527493.1|CD527493
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|110195341|gb|EC877238.1|EC877238
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|32912602|gb|CF017414.1|CF017414
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATTATTTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|50336412|gb|CO531538.1|CO531538
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|9254753|gb|BE345221.1|BE345221
EST:     TGGCACGTGTCGTCCCAACGCTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATC
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATC
EST: gi|60343112|gb|DN210085.1|DN210085
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|5081226|gb|AI738383.1|AI738383
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|78027249|gb|DV495636.1|DV495636
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|26559634|gb|CA831869.1|CA831869
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|76908586|gb|DV163013.1|DV163013
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|211301653|gb|FL434049.1|FL434049
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|91878647|gb|EB408604.1|EB408604
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|149110995|gb|EE294494.2|EE294494
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|29577107|gb|CB617219.1|CB617219
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|71313275|gb|DR793171.1|DR793171
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|9825079|gb|BE575296.1|BE575296
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|31558280|gb|CD527492.1|CD527492
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|4967165|gb|AI691873.1|AI691873
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|22935988|gb|BU572263.1|BU572263
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
EST: gi|91873993|gb|EB403950.1|EB403950
EST:     TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCG                         AAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG
genomic: TGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttata ... tgtgttgcagAAAATGCTTCAGCTTGATCCTTCAAACAGGATATCAGCTTTAGCTGCGATG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTGATTTAAGGGACTGGCATGAGTTTCCACAGTGGAAGCCCCAGGGTTTGGCACGTGTCGTCCCAACACTGGAACCTGAAGGAGTTGACCTTCTATCGgtaagttataagggtgatttacatgcccatttagtgtgttctcttaacctggaagtgtgttaatcaagtaaccttgcttcagttacatacttcgatccac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG