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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgacagaattgcatgttgaagctgtcttgtacatttatggatcaacctgctaactgttcttcatctaacagAGGTGAGAACGGAGAGCTGCGAGTCGGGGTAAGGAGGCTCATGAGACAACTAAATAACATGCCGTCTTCGGTTATCTCAAGCCACAGCATGCATCTTGGA

Basic information

species Zea mays
transcript GRMZM2G702026_T01
intron # 7
splice site 3'
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|211531197|gb|FL317039.1|FL317039
EST:     TTTGTTAGCTCAAAAAGATTGGTTGCGGGTGACGCGTTTATCTTCTTGAG                         AGGTGAGAACGGAGAGCTGCGAGTCGGGGTAAGGAGGCTCATGAGACAACT
genomic: TTTGTTAGCTCAAAAAGATTGGTTGCGGGTGACGCGTTTATCTTCTTGAGgtgtgacaga ... catctaacagAGGTGAGAACGGAGAGCTGCGAGTCGGGGTAAGGAGGCTCATGAGACAACT




















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: 49 (upstream exon), 49 (downstream exon)
Score: 385

GGCAACCAAGGAGGCATCTACTTACAACAGGCTGGAGTGTTTTTGTTAGCTCAAAAAGATTGGTTGCGGGTGACGCGTTTATCTTCTTGAGgtgtgacaga ... catctaacagAGGTGAGAACGGAGAGCTGCGAGTCGGGGTAAGGAGGCTCATGAGACAACTAAATAACATGCCGTCTTCGGTTATCTCAAGCCACAGCATGCATCTTGGA


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 187

GGCAACCAAGGAGGCATCTACTTACAACAGGCTGGAGTGTTTTTGTTAGCTCAAAAAGATTGGTTGCGGGTGACGCGTTTATCTTCTTGAGgtgtgacaga ... catctaacagAGGTGAGAACGGAGAGCTGCGAGTCGGGGTAAGGAGGCTCATGAGACAACTAAATAACATGCCGTCTTCGGTTATCTCAAGCCACAGCATGCATCTTGGA


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 217

GGCAACCAAGGAGGCATCTACTTACAACAGGCTGGAGTGTTTTTGTTAGCTCAAAAAGATTGGTTGCGGGTGACGCGTTTATCTTCTTGAGgtgtgacaga ... catctaacagAGGTGAGAACGGAGAGCTGCGAGTCGGGGTAAGGAGGCTCATGAGACAACTAAATAACATGCCGTCTTCGGTTATCTCAAGCCACAGCATGCATCTTGGA


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 283

GGCAACCAAGGAGGCATCTACTTACAACAGGCTGGAGTGTTTTTGTTAGCTCAAAAAGATTGGTTGCGGGTGACGCGTTTATCTTCTTGAGgtgtgacaga ... catctaacagAGGTGAGAACGGAGAGCTGCGAGTCGGGGTAAGGAGGCTCATGAGACAACTAAATAACATGCCGTCTTCGGTTATCTCAAGCCACAGCATGCATCTTGGA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagctgtcttgtacatttatggatcaacctgctaactgttcttcatctaacagAGGTGAGAACGGAGAGCTGCGAGTCGGGGTAAGGAGGCTCATGAGACAACTAAATAACATGCCGTCTTCGGTTATCTCAAGCCACAGCATGCATCTTGGA
                               tgctaac  putative branch site (score: 283)
                                        ttcttcatct  putative PPT
             tacatttat  TA-rich tract