DreINT0016269 @ danRer10
Intron Retention
Gene
ENSDARG00000103288 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:50957056-50957526:+
Coord C1 exon
chr18:50957056-50957137
Coord A exon
chr18:50957138-50957362
Coord C2 exon
chr18:50957363-50957526
Length
225 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGC
5' ss Score
6.95
3' ss Seq
AATCACCTGTGTGTCCACAGGGC
3' ss Score
10.9
Exon sequences
Seq C1 exon
GATTCGTCCGCACCGGATCTCTGTGTCTGGCGCAGAATCAGGACCGGTTTCTGTCTCTGAAGCGTCTGGCGTCCAGACTGAA
Seq A exon
GTAAGCCGCTTCTCTACATGAAGACAAACACAGAAATCTGGAGGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCAGAAGGGCCGGATGTGGCTCCGCCTACACTCTTTAATGCTGTATTTGTCCACACAGTCGTCTGTTCTCTTGGCATTGAGTGTCTGTAGAGCATCAGCAGATGTAGGCCTTGTGCTGTGTCACTGAATCACCTGTGTGTCCACAG
Seq C2 exon
GGCTCTGGGCGTGGCCTGCAGCATCATCAAGCCTAAAGAGGTGTCAAAGCTCCACCCACTGGTTAATATTCATGATCTGGTGGGCGCTCTGCACCTGCCGGGGGACGCTGTGGTTTCTCCACCCGATGTCAATCATGCGATGGCGGTGGCGGCAGCAGCTAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103288:ENSDART00000158517:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(7.5=100)
A:
NA
C2:
PF0126619=DAO=FE(15.3=100)
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:
GCACCGGATCTCTGTGTCTG
R:
GTTAGCTGCTGCCGCCAC
Band lengths:
236-461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]