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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaactcccaaactgtttttctcattgatcctggatttcaaagtatttgaacctgtggagtgtgaatggttccatcttgttaatttccagCATATGGCAACTCCCGGCCATCTGTATCCAAAGAAGAGCTGAAGGAGAAGCATGCAAACATCAAAGGGGAGGTTGTGGATGGCAATCACTTGGTATCAGT

Basic information

species Zea mays
transcript GRMZM5G892675_T01
intron # 13
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: 34 (upstream exon), 16 (downstream exon)
Score: 4

TTCCCAGAAGCAAAGTGGTACTGGATTGGCTTTGGTGCTATGGTTGGGTTCACCATACTCTTCAACGCTCTTTTCACTCTTGCCCTTACATACCTTAAGCgtgagtaact ... taatttccagCATATGGCAACTCCCGGCCATCTGTATCCAAAGAAGAGCTGAAGGAGAAGCATGCAAACATCAAAGGGGAGGTTGTGGATGGCAATCACTTGGTATCAGT


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 283

TTCCCAGAAGCAAAGTGGTACTGGATTGGCTTTGGTGCTATGGTTGGGTTCACCATACTCTTCAACGCTCTTTTCACTCTTGCCCTTACATACCTTAAGCgtgagtaact ... taatttccagCATATGGCAACTCCCGGCCATCTGTATCCAAAGAAGAGCTGAAGGAGAAGCATGCAAACATCAAAGGGGAGGTTGTGGATGGCAATCACTTGGTATCAGT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 295

TTCCCAGAAGCAAAGTGGTACTGGATTGGCTTTGGTGCTATGGTTGGGTTCACCATACTCTTCAACGCTCTTTTCACTCTTGCCCTTACATACCTTAAGCgtgagtaact ... taatttccagCATATGGCAACTCCCGGCCATCTGTATCCAAAGAAGAGCTGAAGGAGAAGCATGCAAACATCAAAGGGGAGGTTGTGGATGGCAATCACTTGGTATCAGT


Block sizes: 46 (upstream exon), 47 (downstream exon)
Score: 86

TTCCCAGAAGCAAAGTGGTACTGGATTGGCTTTGGTGCTATGGTTGGGTTCACCATACTCTTCAACGCTCTTTTCACTCTTGCCCTTACATACCTTAAGCgtgagtaact ... taatttccagCATATGGCAACTCCCGGCCATCTGTATCCAAAGAAGAGCTGAAGGAGAAGCATGCAAACATCAAAGGGGAGGTTGTGGATGGCAATCACTTGGTATCAGT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcaaagtatttgaacctgtggagtgtgaatggttccatcttgttaatttccagCATATGGCAACTCCCGGCCATCTGTATCCAAAGAAGAGCTGAAGGAGAAGCATGCAAACATCAAAGGGGAGGTTGTGGATGGCAATCACTTGGTATCAGT
                                          tgttaat  putative branch site (score: 86)
                                       tcttgtt  CT-rich tract
                                         ttgttaattt  TA-rich tract