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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAACTTTTCCTTTGCTGGGCCATAATGCAAGGATTTGTCATGATGCTGCAGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAGgtatttttttatatcgagtctaataatcttgcttcagcaatctttatataatggatgttgatggtcaaagttggagaagtttgacttaggagttaggaca...

Basic information

species Zea mays
transcript GRMZM2G154328_T01
intron # 7
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|211458057|gb|FL124703.1|FL124703
EST:     ANAATANATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAG                         GCTAAAANAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAA
genomic: AGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAGgtattttttt ... ttgccaccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAA
EST: gi|211458058|gb|FL124704.1|FL124704
EST:     AGAATARATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAG                         GCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAA
genomic: AGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAGgtattttttt ... ttgccaccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAA
EST: gi|60349253|gb|DN216226.1|DN216226
EST:     AGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAG                         GCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAA
genomic: AGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAGgtattttttt ... ttgccaccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAA
EST: gi|211458060|gb|FL124706.1|FL124706
EST:     TATACTAGGATTGCTTTGGGGAAG                         GCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAA
genomic: TATACTAGGATTGCTTTGGGGAAGgtattttttt ... ttgccaccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAA
EST: gi|91050504|gb|EB160922.1|EB160922
EST:     AGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAG                         GCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAA
genomic: AGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAGgtattttttt ... ttgccaccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAA

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: 46 (upstream exon), 46 (downstream exon)
Score: 92

GGAACTTTTCCTTTGCTGGGCCATAATGCAAGGATTTGTCATGATGCTGCAGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAGgtattttttt ... ttgccaccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAATTGTTGCTGTTGTGCCCTCTCCTTTTCCTCCTGCAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 134

GGAACTTTTCCTTTGCTGGGCCATAATGCAAGGATTTGTCATGATGCTGCAGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAGgtattttttt ... ttgccaccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAATTGTTGCTGTTGTGCCCTCTCCTTTTCCTCCTGCAG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 71

GGAACTTTTCCTTTGCTGGGCCATAATGCAAGGATTTGTCATGATGCTGCAGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAGgtattttttt ... ttgccaccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAATTGTTGCTGTTGTGCCCTCTCCTTTTCCTCCTGCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 136

GGAACTTTTCCTTTGCTGGGCCATAATGCAAGGATTTGTCATGATGCTGCAGAATAGATATCAGCGTCAAAGATTATATACTAGGATTGCTTTGGGGAAGgtattttttt ... ttgccaccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAATTGTTGCTGTTGTGCCCTCTCCTTTTCCTCCTGCAG