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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTTTCCCTCCCTCGACCGACGACCGTCCGTCCACCACCGGATCCAGGAGCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgcaagctcatcaccgccgcagcttcgctgctcgcttcttactgcctagctggggtttgtggttctgtttcgtaccgcaactgattcatcatcg...

Basic information

species Zea mays
transcript GRMZM2G095141_T05
intron # 1
splice site 5'
intron type U2

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|148941574|gb|EC886510.2|EC886510
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|211512679|gb|FL346133.1|FL346133
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCCAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... tctcaggaagGA----TGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|148951196|gb|EC896884.2|EC896884
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|78075611|gb|DV504045.1|DV504045
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|71447021|gb|DR828071.1|DR828071
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|148959199|gb|EE010648.2|EE010648
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|211386581|gb|FL357085.1|FL357085
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCCAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... tctcaggaagGA----TGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|211347508|gb|FL349165.1|FL349165
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCCAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... tctcaggaagGA----TGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|211335900|gb|FL358434.1|FL358434
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|211310888|gb|FL144806.1|FL144806
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GAAGGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCCAAGT
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... tctcaggaagGA----TGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGT
EST: gi|149081591|gb|EE170732.2|EE170732
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|149100624|gb|EE186712.2|EE186712
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAG                         GATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGTTGAG
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... tctcaggaagGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGTTGAG
EST: gi|78078033|gb|DV506448.1|DV506448
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|71301051|gb|DR786555.1|DR786555
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|148951347|gb|EC897061.2|EC897061
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|91872713|gb|EB402670.1|EB402670
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg
EST: gi|149076596|gb|EE165231.2|EE165231
EST:     GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGGAAG                      
genomic: GCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCC----AGgtactgcgca ... tctcagg

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 3 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 4

CCTTTTCCCTCCCTCGACCGACGACCGTCCGTCCACCACCGGATCCAGGAGCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... tctcaggaagGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGTTGAGTATTAACAGACTCGGGCGGTTCGTGTCGCTGGGCGCTCGGAGGCCACCG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 2

CCTTTTCCCTCCCTCGACCGACGACCGTCCGTCCACCACCGGATCCAGGAGCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... tctcaggaagGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGTTGAGTATTAACAGACTCGGGCGGTTCGTGTCGCTGGGCGCTCGGAGGCCACCG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 7

CCTTTTCCCTCCCTCGACCGACGACCGTCCGTCCACCACCGGATCCAGGAGCGACCCTCCCTCGTGCTCGTCGACGATCGACCGGCCGCCGATCGTCCAGgtactgcgca ... tctcaggaagGATGTCGAGCCTCGAGGAGCCGCTGGGTCTCGGAGACCTGCCTAAGTTGAGTATTAACAGACTCGGGCGGTTCGTGTCGCTGGGCGCTCGGAGGCCACCG