BtaINT0117255 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012111 | PRDM5
Description
PR domain containing 5 [Source:HGNC Symbol;Acc:HGNC:9349]
Coordinates
chr6:4606323-4607704:+
Coord C1 exon
chr6:4606323-4606497
Coord A exon
chr6:4606498-4607611
Coord C2 exon
chr6:4607612-4607704
Length
1114 bp
Sequences
Splice sites
5' ss Seq
ACAGTGCGT
5' ss Score
5.66
3' ss Seq
TTTTTTCTATTTCCCCTCAGTGT
3' ss Score
10.91
Exon sequences
Seq C1 exon
ATCGCTTTGGCTGTAAAGAGGACTATGCCTGTCCCTACTGTGAATCGAGTTTTACCAGTGAGGAAATTCTTGCCGAGCATCTTCAGACATTGCACCAGAAACCCACAGAGGAGAAAGAATATAAGTGCAAGAGCTGTGGGAAGAAATTCCCAGTTAAGCAGGCTTTGCAAAGACA
Seq A exon
GTGCGTACATTAAAGATAATCTCTGAAGTTATAAGCTGACGTTTTAACTCTTTTATTTGGTTTGTCTTCTAGTTAGTTTCTAACCTGTGTGCCTGTGTGATGGTGTGTGTATAGAAATTAAGCATTCTTTATTGTCATTGTCGTTAACTTTTCTTACATCGATTTTCCAAACATTCTGTTTATGGATTTTAATAACTTGCCATTAAATATTAAGCTCATTGGTGTACTAACCTGAAATCTGATATGCATAATTTAGCTAGTGCTTTGAGGGGGCAGGTCGAGTTTCAGTGATCTGCATGTGATACTCCTCTGAAATCAGGTAAAAAAAAAGTTAACGAAATGGAGAGAGTTTGGAGTATAAAGAATACAGGGACATTTTGGGAAGCAGTGTTTATTTCATAGCAATGTTGGAGAAATCACTTTGAAGATGAATATGTATAGGATCTAACGATGAAGTAAATTAAATGGTCCCACCCATTGCTCAGTGCCCTTTATTATTTTAACTGTTTATATTAACAGTGTATAAATTTATCCTTTTATTTAAGTATTTTACAGTATCATGAGTTACTAAAAATGAGAAAGTGTATACATGTATTTATAAACTTTTATTTTTAACAGAATGTCACCTTGCATATGAGCAAGAACTCTTTAACATAGGCTTAATGTTTCATTTTTTATTCATTCAAGTAAAATTTTGAAACATGCTGTAGTTCATATTAAAATAATTTTCATATATTTACCCACTTTTGCTTATGATATTTGAGATTAAAAATTTCTGTTCAAAACTTGAAAAATATTAACTTTTATATTATACATTTAGAAATTCTCTTATACACTTTTAAACAAGCAAAAGCTGTATACTTTTTAATGAATATATTTTGAAACTGCATTCTAGTCAGTTTTTATTGAATTTATGTTATATATACTACCTTAAGCATACTTTAGCTGAGCTGAGTCTTACTGCTAGGTGCTACTAAAAAGTTTAAAGGGCAAAAAGACAGAATAAAAAGAAGAGATCATGAATGTGACTCTATTCAAAGTAGAGGTATTTTCATAAGCTTTTGTCCTAGACTTCCAGTTTTTTTTTTGTTTGTTTTTTTCTATTTCCCCTCAG
Seq C2 exon
TGTTCTTCAGTGCTCAGCGAAAAGCAGTCTGAAGGATTCTTCACGAAGTTTTCAGTGCTCTGTTTGCAATACTTCCTTCAGTTCAGCATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012111:ENSBTAT00000049757:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF056057=zf-Di19=PU(88.1=88.1)
A:
NA
C2:
PF056057=zf-Di19=PD(10.2=18.8),PF128742=zf-met=PU(66.7=43.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTTTGGCTGTAAAGAGGACT
R:
TCGATGCTGAACTGAAGGAAGT
Band lengths:
265-1379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]