DreINT0016267 @ danRer10
Intron Retention
Gene
ENSDARG00000103288 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:50961005-50962032:+
Coord C1 exon
chr18:50961005-50961187
Coord A exon
chr18:50961188-50961432
Coord C2 exon
chr18:50961433-50962032
Length
245 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TTGGACTCTGGCTCCTGCAGGAC
3' ss Score
8.32
Exon sequences
Seq C1 exon
TATGCACTGCACGTGTATAATGAGGTGATGTCGGTGGGCCAGAAGTACGGCATCCGCAACGCCGGCTACTACGCTCTGCGGAGTCTGCGCATCGAGAAGTTCTTTGCGTTCTGGGGTCAGGATCTGGACTCGTTCACCACACCGCTGGAGTGCGGACGCGAGTTCAGGGTCAAGTTTGACAAG
Seq A exon
GTCAGTGTTTCAGACGGACATCCCTCTGTAGCAGTTACCCACAATGCAACACAAGAGAGCGCTGCGACTGCAGGAGGAACGGCTGATCTCATGCCCTTACCACTGCAGACCCTGATCCTGACCTTAACCCTGACCCTGACCCTAACCCTCTAAAAAGTCTGCTCACCTACAACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGGACTCTGGCTCCTGCAG
Seq C2 exon
GACACAGATTTCCTGGGCCGGGCCGCTCTGCTGCAGCAGCGTGAGTTAGGGGTGACGCGGCGCTTCCTCATGCTGGTTCTGGAGGATCATGATGCGGAGTTGGACCTGTGGCCGTGGTGGGGTGAGCCCATATATCGCAGCGGGCAGCTAGCGGGCACCACCAGCAGCAGCGCCTACAGCTACACCCTGCAGCGGCACGTGTGTCTGGGCTTCATCCGGCGGCTGGAGGACGGCGCGCCCGCGGTGATCACGCCCGAGTTCATCAACCGCGGAGACTACGAGGTGGAGATCGCCGGGCAGCGCTTCCCCGCCAAAGCCAAGCTCTACCCGTTCAGCTCACTGTTCGCCCAGCAGCGGCGCCGCAAGGAGGACCTGGAGCTCAGCAACTTCCAGAGCAAGTGAAGCGGAGAGACCATCAGTACCTGCAGACAATCACCTGTACCTGCACCGGCTGAGGGACGCTGCGCTGCTCCTGCAGGTGTGGATCTGCCCTCATCTGCTGCTCCTCCTCCTCATCTCTGATCGGCTGTTCAGTTCAGCAGCTGACAATCCTGAAACCCTAATGCTGGAACAGTTCTGCAGAGAGGTGTGTGTGTGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103288:ENSDART00000158517:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0157116=GCV_T=PD(25.2=90.2)
A:
NA
C2:
PF086696=GCV_T_C=WD(100=79.9)
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:
CGCGAGTTCAGGGTCAAGTTT
R:
GTTGATGAACTCGGGCGTGAT
Band lengths:
294-539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]