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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataaccattttcacactagatggttgtattgtgttttgctcagttttttcaatcttaaaccggtgcaaaattattatcttagattactgaaccttgcgttagcattgatggaagataatgttataatatttcattagtgttcttccctatatatttgtctaataaccttgtatctctctccagGTCACCCATGGTTGCAGAACATTAAGAAGGCTCCAAATGTTAATTTGGGTGAAACCGTTAAGGCCAGACTCAAACAATTCTCTGTGATGAACAAGTTCAA

Basic information

species Zea mays
transcript GRMZM5G874665_T01
intron # 7
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), 49 (downstream exon)
Score: 254

AGAGATCCATGGCCAAGGGTGTCTGATAACGCCAAAGACCTTGTCAGAGGAATGCTGAATCCGGACCAAAAACGACGATTGACAGCTCACCAAGTGCTTGgtaataacca ... ctctctccagGTCACCCATGGTTGCAGAACATTAAGAAGGCTCCAAATGTTAATTTGGGTGAAACCGTTAAGGCCAGACTCAAACAATTCTCTGTGATGAACAAGTTCAA


Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 189

AGAGATCCATGGCCAAGGGTGTCTGATAACGCCAAAGACCTTGTCAGAGGAATGCTGAATCCGGACCAAAAACGACGATTGACAGCTCACCAAGTGCTTGgtaataacca ... ctctctccagGTCACCCATGGTTGCAGAACATTAAGAAGGCTCCAAATGTTAATTTGGGTGAAACCGTTAAGGCCAGACTCAAACAATTCTCTGTGATGAACAAGTTCAA


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 294

AGAGATCCATGGCCAAGGGTGTCTGATAACGCCAAAGACCTTGTCAGAGGAATGCTGAATCCGGACCAAAAACGACGATTGACAGCTCACCAAGTGCTTGgtaataacca ... ctctctccagGTCACCCATGGTTGCAGAACATTAAGAAGGCTCCAAATGTTAATTTGGGTGAAACCGTTAAGGCCAGACTCAAACAATTCTCTGTGATGAACAAGTTCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 227

AGAGATCCATGGCCAAGGGTGTCTGATAACGCCAAAGACCTTGTCAGAGGAATGCTGAATCCGGACCAAAAACGACGATTGACAGCTCACCAAGTGCTTGgtaataacca ... ctctctccagGTCACCCATGGTTGCAGAACATTAAGAAGGCTCCAAATGTTAATTTGGGTGAAACCGTTAAGGCCAGACTCAAACAATTCTCTGTGATGAACAAGTTCAA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcattagtgttcttccctatatatttgtctaataaccttgtatctctctccagGTCACCCATGGTTGCAGAACATTAAGAAGGCTCCAAATGTTAATTTGGGTGAAACCGTTAAGGCCAGACTCAAACAATTCTCTGTGATGAACAAGTTCAA
                               taataac  putative branch site (score: 227)
                                     ccttgtatctctctcc  CT-rich tract
                   tatatatttgtctaat  TA-rich tract