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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAGATCTGTTGTACTAAACACCCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTGgtatgtcaacatatgctttgtataaaaattctgtacaagttctgcaaagagattttgtgtttgtgtgcaaatactactgtgtttcagagtcaacatagaa...

Basic information

species Zea mays
transcript GRMZM5G833124_T01
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|91874041|gb|EB403998.1|EB403998
EST:     CCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTG                         GGTATGTACCCTCGCTGAAGGATGGAAACTCACAAGAGACAATATTTAATC
genomic: CCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTGgtatgtcaac ... actggtgcagGGTATGTACCCTCGCTGAAGGATGGAAACTCACAAGAGACAATATTTAATC
EST: gi|60356183|gb|DN223156.1|DN223156
EST:     CCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTG                         GGTATGTACCCTCGCTGAAGGATGGAAACTCACAAGAGACAATATTTAATC
genomic: CCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTGgtatgtcaac ... actggtgcagGGTATGTACCCTCGCTGAAGGATGGAAACTCACAAGAGACAATATTTAATC
EST: gi|32810114|gb|CD962348.1|CD962348
EST:     CCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTG                         GGTATGGTACCCTCGCTGAAGGATGGAAACTCACAAGAGACAATATTTA
genomic: CCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTGgtatgtcaac ... actggtgcagGGTATG-TACCCTCGCTGAAGGATGGAAACTCACAAGAGACAATATTTA

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), 49 (downstream exon)
Score: 140

GTGAGATCTGTTGTACTAAACACCCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTGgtatgtcaac ... actggtgcagGGTATGTACCCTCGCTGAAGGATGGAAACTCACAAGAGACAATATTTAATCCACCTTGGCGACATGAGCCAGTTGCAATAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 357

GTGAGATCTGTTGTACTAAACACCCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTGgtatgtcaac ... actggtgcagGGTATGTACCCTCGCTGAAGGATGGAAACTCACAAGAGACAATATTTAATCCACCTTGGCGACATGAGCCAGTTGCAATAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 282

GTGAGATCTGTTGTACTAAACACCCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTGgtatgtcaac ... actggtgcagGGTATGTACCCTCGCTGAAGGATGGAAACTCACAAGAGACAATATTTAATCCACCTTGGCGACATGAGCCAGTTGCAATAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 317

GTGAGATCTGTTGTACTAAACACCCTGAATAGGGCAAGGTTCACTGTGGCTGTGGATTCTTTCATCAGGACTGgtatgtcaac ... actggtgcagGGTATGTACCCTCGCTGAAGGATGGAAACTCACAAGAGACAATATTTAATCCACCTTGGCGACATGAGCCAGTTGCAATAG