RnoINT0109326 @ rn6
Intron Retention
Gene
ENSRNOG00000022593 | Pdpr
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:RGD Symbol;Acc:1308307]
Coordinates
chr19:43119868-43120685:-
Coord C1 exon
chr19:43120530-43120685
Coord A exon
chr19:43120002-43120529
Coord C2 exon
chr19:43119868-43120001
Length
528 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
TTTTTTTTTCTGTTTCATAGACC
3' ss Score
10.78
Exon sequences
Seq C1 exon
CTCTGATATACGATCTGAAGGTTCCTCGTTGGGATTTCCAGACTGGAAGGCAGTTGCGCACATCTCCTCTTTATGACCGGCTGGATGCTCAAGGAGCCAGATGGATGGAGAAACATGGATTTGAGAGGCCAAAGTACTTTGTTCCACCCAACAAGG
Seq A exon
GTAAGAATGTGTCTGTCTGTCTTTTTGATACAGAATCCCACATTTTAGCCTAGAACTTAATATTTCAGGTTGGCTTTGAATTCTCATCAGTCCTCTTAATTTCAACATCTCAAGTGCTGGGATTACAGGCAGAAACCACCACCCTTTGTGCGCATGTGTGTGCACGCGTGTGCGTGTTACATGTGTGTCTGTGTGTTTCTGTATCCTTGTGTAGACCAGAGATTTGTGTTGTTTTCTCTGTTGTTCTCCACCTTACTTTTTCAGACAGAATCTTACTTTTTCTCACCTAGCTTTATAGATGCACACTTTATAGAGCCAAACTCGTCTTCATGCTTGCATAGCAAGCACTTGCACTACTGAGGCAGTTCTACCCCCTTCTTAAAACTGGTATTTAATAATTGCCTGTAGCTAGAATTATTCCTGAAAGGAAAAATGTCTTGTAGGCCATAATAAAATATATGGGGACGTCTCAGTGTCAAAACTCTTTTTCGTTCTACCTTGTTTTTTTTTTTTTTTTCTGTTTCATAG
Seq C2 exon
ACCTTCTTGCATTAGAACAGAGCAAGACTTTCTACAAGCCAGACTGGTTTGATATTGTGGAGTCTGAAGTCAAATGCTGTAAGGAAGCTGTGTGTGTCATTGACATGTCTTCTTTCACAAAATTTGAAATAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022593:ENSRNOT00000038452:11
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:
NO
A:
NA
C2:
PF0157116=GCV_T=PU(5.5=26.7)
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:
TGATATACGATCTGAAGGTTCCTCG
R:
CAAATTTTGTGAAAGAAGACATGTCA
Band lengths:
279-807
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]