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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTCAAACCAAACCCAGCATTCAGTTATGGCTTCATCAATGGGAACCGAGAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAGgttgtcctatcctctgtgttaaacatcaaatttctctggtgatttggctcttatgcattgtttactgacccaatcttttctgttcatataactag

Basic information

species Zea mays
transcript GRMZM2G167932_T02
intron # 5
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|31351085|gb|CD435442.1|CD435442
EST:     GAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAG                         AGAGCAAATCTGTGTATGTCGGCAACGTGCCATCATCTGTAAGTGAGGCTG
genomic: GAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAGgttgtcctat ... atataactagAGAGCAAATCTGTGTATGTCGGCAACGTGCCATCATCTGTAAGTGAGGCTG
EST: gi|31354051|gb|CD438408.1|CD438408
EST:     GAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAG                         AGAGCAAATCTGTGTATGTCGGCAACGTGCCATCATCTGTAAGTGAGGCTG
genomic: GAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAGgttgtcctat ... atataactagAGAGCAAATCTGTGTATGTCGGCAACGTGCCATCATCTGTAAGTGAGGCTG
EST: gi|8367891|gb|BE050836.1|BE050836
EST:     GAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAG                         AGAGCAAATCTGTGTATGTCGG-AACG-GCCATCATCTGTAAGTGAGGCTG
genomic: GAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAGgttgtcctat ... atataactagAGAGCAAATCTGTGTATGTCGGCAACGTGCCATCATCTGTAAGTGAGGCTG

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: 48 (upstream exon), 48 (downstream exon)
Score: 518

GAGTCAAACCAAACCCAGCATTCAGTTATGGCTTCATCAATGGGAACCGAGAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAGgttgtcctat ... atataactagAGAGCAAATCTGTGTATGTCGGCAACGTGCCATCATCTGTAAGTGAGGCTGATCTTGAAAACGAGTTCAAGAAATTTGGCCGGCTTATTCCTGACGGTGT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 390

GAGTCAAACCAAACCCAGCATTCAGTTATGGCTTCATCAATGGGAACCGAGAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAGgttgtcctat ... atataactagAGAGCAAATCTGTGTATGTCGGCAACGTGCCATCATCTGTAAGTGAGGCTGATCTTGAAAACGAGTTCAAGAAATTTGGCCGGCTTATTCCTGACGGTGT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 429

GAGTCAAACCAAACCCAGCATTCAGTTATGGCTTCATCAATGGGAACCGAGAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAGgttgtcctat ... atataactagAGAGCAAATCTGTGTATGTCGGCAACGTGCCATCATCTGTAAGTGAGGCTGATCTTGAAAACGAGTTCAAGAAATTTGGCCGGCTTATTCCTGACGGTGT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 334

GAGTCAAACCAAACCCAGCATTCAGTTATGGCTTCATCAATGGGAACCGAGAAACCGAGGTCTGATGTCTTTGGTGAGGGTGCTTCCCATGATGACGAAGgttgtcctat ... atataactagAGAGCAAATCTGTGTATGTCGGCAACGTGCCATCATCTGTAAGTGAGGCTGATCTTGAAAACGAGTTCAAGAAATTTGGCCGGCTTATTCCTGACGGTGT