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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTATCGCGATGTACGCGACTCTAGCTAGCCGTGATGTGgtacgctcttaacactctgctaattcattttatgttcaacatgaggaaagaaaaaatatatatagcgagccaagtgtctgaccactccattctacctgctacctcag

Basic information

species Zea mays
transcript GRMZM2G080375_T02
intron # 8
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|116813643|gb|EC856113.1|EC856113
EST:     GTTTTATCGCGATGTACGCAACTCTAGCTAGCCGTGATGTG                         GACTGTTGTTTAATCCCGGAGTCACCCTTCTACCTCGAAGGGAAGG
genomic: GTTTTATCGCGATGTACGCGACTCTAGCTAGCCGTGATGTGgtacgctctt ... gctacctcagGACTGTTGTTTAATCCCGGAGTCACCCTTCTACCTCGAAGGGAAGG
EST: gi|211450005|gb|FL281917.1|FL281917
EST:     GTTTTATCGCGATGTACGCGACTCTAGCTAGCCGTGATGTG                         GACTGTTGTTTAATCCCGGAGTCACC
genomic: GTTTTATCGCGATGTACGCGACTCTAGCTAGCCGTGATGTGgtacgctctt ... gctacctcagGACTGTTGTTTAATCCCGGAGTCACC
EST: gi|211450006|gb|FL281918.1|FL281918
EST:     GTTTTATCGCGATGTACGCGACTCTAGCTAGCCGTGATGTG                         GACTGTTGTTTAATCCCGGAGTCACCCTTCTACCTCGAAGGGAAGGGAGGA
genomic: GTTTTATCGCGATGTACGCGACTCTAGCTAGCCGTGATGTGgtacgctctt ... gctacctcagGACTGTTGTTTAATCCCGGAGTCACCCTTCTACCTCGAAGGGAAGGGAGGA

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 4 RNA-Seq libraries.


Block sizes: 40 (upstream exon), 41 (downstream exon)
Score: 42

GTTTTATCGCGATGTACGCGACTCTAGCTAGCCGTGATGTGgtacgctctt ... gctacctcagGACTGTTGTTTAATCCCGGAGTCACCCTTCTACCTCGAAGGGAAGGGAGGACTCCTCGAGTTCGTCGAGAGGCGGCTCAAGGACAACGGCCACATGGTCA


Block sizes: 40 (upstream exon), 47 (downstream exon)
Score: 393

GTTTTATCGCGATGTACGCGACTCTAGCTAGCCGTGATGTGgtacgctctt ... gctacctcagGACTGTTGTTTAATCCCGGAGTCACCCTTCTACCTCGAAGGGAAGGGAGGACTCCTCGAGTTCGTCGAGAGGCGGCTCAAGGACAACGGCCACATGGTCA


Block sizes: 40 (upstream exon), 47 (downstream exon)
Score: 276

GTTTTATCGCGATGTACGCGACTCTAGCTAGCCGTGATGTGgtacgctctt ... gctacctcagGACTGTTGTTTAATCCCGGAGTCACCCTTCTACCTCGAAGGGAAGGGAGGACTCCTCGAGTTCGTCGAGAGGCGGCTCAAGGACAACGGCCACATGGTCA


Block sizes: 40 (upstream exon), 47 (downstream exon)
Score: 149

GTTTTATCGCGATGTACGCGACTCTAGCTAGCCGTGATGTGgtacgctctt ... gctacctcagGACTGTTGTTTAATCCCGGAGTCACCCTTCTACCTCGAAGGGAAGGGAGGACTCCTCGAGTTCGTCGAGAGGCGGCTCAAGGACAACGGCCACATGGTCA