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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatcatcaatatttttattattttttgctccactagtaaagtcttttgcatatacctttcaaaccggtgaagttggattgtcaatctttgattttttgcccagGGAGCTGTACTTTCTCATGAGAACTTAATTGCAAATGTAGCAGGGTCAAGTTTAGGCATTAAGTTTTACCCCTCTGATGT

Basic information

species Zea mays
transcript GRMZM2G059381_T01
intron # 10
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: 143

GGAAAGATGAGTCCTCAAACTTTTCGTCCACCAAAACCTGAAGATATAGCCACTATCTGCTACACCAGTGGCACTACTGGCACACCAAAGgtaaatcatc ... ttttgcccagGGAGCTGTACTTTCTCATGAGAACTTAATTGCAAATGTAGCAGGGTCAAGTTTAGGCATTAAGTTTTACCCCTCTGATGT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 297

GGAAAGATGAGTCCTCAAACTTTTCGTCCACCAAAACCTGAAGATATAGCCACTATCTGCTACACCAGTGGCACTACTGGCACACCAAAGgtaaatcatc ... ttttgcccagGGAGCTGTACTTTCTCATGAGAACTTAATTGCAAATGTAGCAGGGTCAAGTTTAGGCATTAAGTTTTACCCCTCTGATGT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 157

GGAAAGATGAGTCCTCAAACTTTTCGTCCACCAAAACCTGAAGATATAGCCACTATCTGCTACACCAGTGGCACTACTGGCACACCAAAGgtaaatcatc ... ttttgcccagGGAGCTGTACTTTCTCATGAGAACTTAATTGCAAATGTAGCAGGGTCAAGTTTAGGCATTAAGTTTTACCCCTCTGATGT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 606

GGAAAGATGAGTCCTCAAACTTTTCGTCCACCAAAACCTGAAGATATAGCCACTATCTGCTACACCAGTGGCACTACTGGCACACCAAAGgtaaatcatc ... ttttgcccagGGAGCTGTACTTTCTCATGAGAACTTAATTGCAAATGTAGCAGGGTCAAGTTTAGGCATTAAGTTTTACCCCTCTGATGT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catatacctttcaaaccggtgaagttggattgtcaatctttgattttttgcccagGGAGCTGTACTTTCTCATGAGAACTTAATTGCAAATGTAGCAGGGTCAAGTTTAGGCATTAAGTTTTACCCCTCTGATGT
                                     ctttgat  putative branch site (score: 606)
                                           ttttttgccc  CT-rich tract
                                  aatctttgatttttt  TA-rich tract