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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGAGGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctcacctgttactaaaaacagttctcaaccatgttgtgctgttttcttgttaccaattttgtggacaatgaagcatacatttacatttatcaca...

Basic information

species Zea mays
transcript GRMZM2G159369_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G159369_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os05g06430.1 (Oryza sativa), 5'ss of exon 4
GTATGAGGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctcacctgttactaaaaacagttctcaaccatgttgtgctgttttcttgttaccaattttgtggacaatgaagcatacatttacatt-tatcaca--
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GTATGAAGGTCAACGTACCGCGGAAGCCCTTGCAGAATATGTTAACTCTGAAGCAGgtagacgaacgcactttccaacca-agctatcggtctccttgtttggaaaattaactgcattttttatt-accatgaaacatat-tatgtatgatatttcagt
















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|211332792|gb|FK966335.1|FK966335
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTAC-AATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|22819386|gb|BU499476.1|BU499476
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|211334956|gb|FK966345.1|FK966345
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTAC-AATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTG
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTG
EST: gi|211332783|gb|FK966326.1|FK966326
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|148935523|gb|EC879564.2|EC879564
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|24763723|gb|CA398894.1|CA398894
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|32837026|gb|CD976704.1|CD976704
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|21891538|gb|BQ744751.1|BQ744751
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|211332787|gb|FK966330.1|FK966330
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|211334959|gb|FK966348.1|FK966348
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|32858375|gb|CD998056.1|CD998056
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|9254368|gb|BE344836.1|BE344836
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|88755206|gb|DY539347.1|DY539347
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|211332782|gb|FK966325.1|FK966325
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTG
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTG
EST: gi|111145784|gb|EE258169.1|EE258169
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|211334948|gb|FK966337.1|FK966337
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|33285626|gb|CF075421.1|CF075421
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|211334955|gb|FK966344.1|FK966344
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|31360143|gb|CD444500.1|CD444500
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|20507142|gb|BQ279504.1|BQ279504
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|26457090|gb|CA828673.1|CA828673
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|211332789|gb|FK966332.1|FK966332
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGA--CRG                         GGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTG
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagG-TACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTG
EST: gi|6994161|gb|AW453375.1|AW453375
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|211332788|gb|FK966331.1|FK966331
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTAC-AATGTCAAGATAGCTGGCATTCCTTCAAGCGTCGTG
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTG
EST: gi|211332781|gb|FK966324.1|FK966324
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGACG-AG                         GTTACCAATGTCAAGATAGCTGCCATTCCTTCAAGC
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGT-ACCAATGTCAAGATAGCTGCCATTCCTTCAAGC
EST: gi|32864543|gb|CF004225.1|CF004225
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|211334949|gb|FK966338.1|FK966338
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAMR-AG                         GTTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCG
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGT-ACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCG
EST: gi|22935460|gb|BU571735.1|BU571735
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
EST: gi|211001445|gb|FL439450.1|FL439450
EST:     GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAG                         GTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT
genomic: GGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctca ... attgttccagGTACCAATGTCAAGATAGCTGCCATTCCTTCAAGCGTCGTGGTTCTGACTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATGAGGGTCAACGTTCTGTGGAAGCCCTTGCAGAATTTGTTAACAGCGAAGCAGgtaggcctcacctgttactaaaaacagttctcaaccatgttgtgctgttttcttgttaccaattttgtggacaatgaagcatacatttacatttatcaca

- - - - - - - - - - TGGAAG