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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaatgcagctggtttcgagttgccaaccactttcttgcaccaatactcacaatttatctccttctcattcatccagATACCAACTGAACCAATATCCCCAACAATTGAGGCACTCATTTTGCTCCATGATAAA

Basic information

species Zea mays
transcript AC212979.2_FGT006
intron # 6
splice site 3'
intron type U2

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: 157

TGTTAGGCGGGTAGAGCAGCAGACTGGTGCTCGCATTAAAGTTCAAGAGATTGACAAAGATGCTTCTGGAGAAAGGCTGATCATTGTTTCATCTAACGAGgtaacaatgc ... attcatccagATACCAACTGAACCAATATCCCCAACAATTGAGGCACTCATTTTGCTCCATGATAAA


Block sizes: 46 (upstream exon), 47 (downstream exon)
Score: 84

TGTTAGGCGGGTAGAGCAGCAGACTGGTGCTCGCATTAAAGTTCAAGAGATTGACAAAGATGCTTCTGGAGAAAGGCTGATCATTGTTTCATCTAACGAGgtaacaatgc ... attcatccagATACCAACTGAACCAATATCCCCAACAATTGAGGCACTCATTTTGCTCCATGATAAA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 90

TGTTAGGCGGGTAGAGCAGCAGACTGGTGCTCGCATTAAAGTTCAAGAGATTGACAAAGATGCTTCTGGAGAAAGGCTGATCATTGTTTCATCTAACGAGgtaacaatgc ... attcatccagATACCAACTGAACCAATATCCCCAACAATTGAGGCACTCATTTTGCTCCATGATAAA


Block sizes: 46 (upstream exon), 47 (downstream exon)
Score: 103

TGTTAGGCGGGTAGAGCAGCAGACTGGTGCTCGCATTAAAGTTCAAGAGATTGACAAAGATGCTTCTGGAGAAAGGCTGATCATTGTTTCATCTAACGAGgtaacaatgc ... attcatccagATACCAACTGAACCAATATCCCCAACAATTGAGGCACTCATTTTGCTCCATGATAAA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccaaccactttcttgcaccaatactcacaatttatctccttctcattcatccagATACCAACTGAACCAATATCCCCAACAATTGAGGCACTCATTTTGCTCCATGATAAA
                      tactcac  putative branch site (score: 103)
 tttatctccttctcat  putative PPT
 acaatttat  TA-rich tract