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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCATCTGTGTGATCCGTCCAAGGGAAAACATTAGATCCATCTCCAACTACATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACTGgtatgggactctttgcactttaggattaactaatattcctggtatggatataatatcttttctctgctgctagctacaagggacctgagtatcttaagtc...

Basic information

species Zea mays
transcript GRMZM2G353548_T01
intron # 16
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|32804327|gb|CD956563.1|CD956563
EST:     CATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACTG                         GTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGC
genomic: CATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACTGgtatgggact ... cttgatttagGTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGC
EST: gi|32802428|gb|CD954664.1|CD954664
EST:     CATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGATTG                         GTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGC
genomic: CATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACTGgtatgggact ... cttgatttagGTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGC
EST: gi|32802197|gb|CD954433.1|CD954433
EST:     CATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACTG                         GTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGC
genomic: CATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACTGgtatgggact ... cttgatttagGTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGC
EST: gi|32789074|gb|CD941310.1|CD941310
EST:     ATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACCTG                         GTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGG
genomic: ATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGA-CTGgtatgggact ... cttgatttagGTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGG
EST: gi|166595626|gb|EG314408.1|EG314408
EST:     TCAATGGGCTCTTTCAAGTGCCTTGGGGACTG                         GTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGC
genomic: TCAATGGGCTCTTTCAAGTGCCTTGGGGACTGgtatgggact ... cttgatttagGTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGC
EST: gi|211327869|gb|FL163545.1|FL163545
EST:     CAATGGGCTCTTTCAAGTGCCTTGGGGACTG                         GTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGC
genomic: CAATGGGCTCTTTCAAGTGCCTTGGGGACTGgtatgggact ... cttgatttagGTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGC

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: 143

TTCATCTGTGTGATCCGTCCAAGGGAAAACATTAGATCCATCTCCAACTACATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACTGgtatgggact ... cttgatttagGTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGCTGCCATCACGATGCTGTAATTATACCTTTTGTACATGTATTCCAATCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 67

TTCATCTGTGTGATCCGTCCAAGGGAAAACATTAGATCCATCTCCAACTACATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACTGgtatgggact ... cttgatttagGTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGCTGCCATCACGATGCTGTAATTATACCTTTTGTACATGTATTCCAATCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 109

TTCATCTGTGTGATCCGTCCAAGGGAAAACATTAGATCCATCTCCAACTACATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACTGgtatgggact ... cttgatttagGTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGCTGCCATCACGATGCTGTAATTATACCTTTTGTACATGTATTCCAATCAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 68

TTCATCTGTGTGATCCGTCCAAGGGAAAACATTAGATCCATCTCCAACTACATTAGAACAGATAATTCTCAATGGGCTCTTTCAAGTGCCTTGGGGACTGgtatgggact ... cttgatttagGTCTTTGCAGGGGCGGCAGGAGATGTAAATCTACATGGCCACCGTCGTGGCTGCCATCACGATGCTGTAATTATACCTTTTGTACATGTATTCCAATCAG