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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCGGAGTTTGCAAAATCCTGTAGGTTGTGAGAATTTTAGTTTTGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATGgtattttctatcattctcatctttcttttattttctttcccctttttcagtgacgcatgaggtggtcaatagcatctgtaatgtgtccactgaactagat...

Basic information

species Zea mays
transcript GRMZM2G015132_T01
intron # 2
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|74241792|gb|DT649706.1|DT649706
EST:     TGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATG                         GTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTG
genomic: TGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATGgtattttcta ... gttatgtcagGTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTG
EST: gi|76932164|gb|DV172957.1|DV172957
EST:     TGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATG                         GTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTG
genomic: TGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATGgtattttcta ... gttatgtcagGTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTG
EST: gi|71441954|gb|DR823004.1|DR823004
EST:     TGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATG                         GTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTG
genomic: TGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATGgtattttcta ... gttatgtcagGTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTG
EST: gi|211501920|gb|FL162229.1|FL162229
EST:     TGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATG                         GTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTG
genomic: TGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATGgtattttcta ... gttatgtcagGTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTG

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), 48 (downstream exon)
Score: 78

CTGCGGAGTTTGCAAAATCCTGTAGGTTGTGAGAATTTTAGTTTTGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATGgtattttcta ... gttatgtcagGTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTGCAAAACAGCTCGAGACATTCTCAGCAGGAGTAAATGGAAGCTGCACATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 177

CTGCGGAGTTTGCAAAATCCTGTAGGTTGTGAGAATTTTAGTTTTGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATGgtattttcta ... gttatgtcagGTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTGCAAAACAGCTCGAGACATTCTCAGCAGGAGTAAATGGAAGCTGCACATG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 187

CTGCGGAGTTTGCAAAATCCTGTAGGTTGTGAGAATTTTAGTTTTGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATGgtattttcta ... gttatgtcagGTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTGCAAAACAGCTCGAGACATTCTCAGCAGGAGTAAATGGAAGCTGCACATG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 201

CTGCGGAGTTTGCAAAATCCTGTAGGTTGTGAGAATTTTAGTTTTGTTCGGCATTTCTCCAGCGGTTCTGGGTCCTTTATCGCCAGGGAAAATGgtattttcta ... gttatgtcagGTATTGGAAAAAGAACCAGAGGTACCAGATTTTCCCAGCATAACCAGCCTGCAAAACAGCTCGAGACATTCTCAGCAGGAGTAAATGGAAGCTGCACATG