RnoINT0109338 @ rn6
Intron Retention
Gene
ENSRNOG00000022593 | Pdpr
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:RGD Symbol;Acc:1308307]
Coordinates
chr19:43128360-43129551:-
Coord C1 exon
chr19:43129434-43129551
Coord A exon
chr19:43128510-43129433
Coord C2 exon
chr19:43128360-43128509
Length
924 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
TCCGTGTTCTTTTCCTTCAGCCG
3' ss Score
9.66
Exon sequences
Seq C1 exon
TGGGCGTATGAGCTGGGTTTGTCCAGCGAGGAGCCGGTTAGTATCCCGCTGCACGCCTGTGAGCACTTCTACCTTCTGACTCGTCCCTGCGACGCCCCTCTGCAGAGCAGCACACCAA
Seq A exon
GTGAGGACTTGTACTTTTTCTTTCTTTCGTTCTTTTTAAAAATAATTTCATCTCCTTGCTAGCGAGTATCTTGTCCTTTGAAAGGAAAACTTCATTAAAGACACATTTCATCTAGAGAACTTTTTTCTTTCCTGGAGCATGTAAAAGGCGGGGAATTCAAGTCTGACTTTTCTTTGATTACTTCTTAGGAAAAAATAGCCAAAATGAAGATGCCATTAAGGATGTTTTTGGGTTTTGGTTTTTTGTTTGTTTGATTTTTTTGAGACAGGGTTTCTCTGTAATAGTCCTAGCTATCTTAGACTCGCTTTTTAGACCAGGCTGGCCACAAACTCACAGATATCTACTTGCCACTGCCTCCTGAGTGCTGGGATTAAAGGCATGCACCATCACTGCCCTGCTTTGTTTGTTTGATTTTTTTCTTTTTAAAGATGATTTTAATCCCTAATATAGTTCATTGAGAATTTGGAATATAACTTTTGTACTTTTCAACTAGAATGGTATCAGTTGTATAGGTAGTCTACATACTTGGTGATCTAATGGTTACAAACATGGAATAAAGAAAAGGGGGTTATTTTACTTCTTTGTCTGTCTGTCTTTCTCTTTCCTACCCTCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCTCCCCTTTTCTTTTGGTGTTTTGAGGCAGACAGTAGCCCTGCCTGTCCTGGAATTCACTCTGTAGGTCAGGCTGGCCTCAGACTCCACCTTCCACTACCTGCCAGTGTTAGGATTAAAGGCGTGCACTACTGCTGCCTGGCCTTCAAGGGTGCTCTAAGACCAACGGATGCCTGTATTTACTGGATGCTGTGATGTTGGTAAGGCCAACATCTAGGGATCTAGATGGTCTCTAACCCTTGTTCTTTTCCTTTGTCCCACGTCCGTGTTCTTTTCCTTCAG
Seq C2 exon
CCGTTGTGGATGCGGACGGAAGAATTTACATTAGGAACTGGCAGGGTGGCGTCTTGTCTGGAGGCTTTGAGAAGAACCCAAAACCTATTTTCACTGAAGGCAAGAACCAGTTGGAAATTCAGAACCTTCGGGAAGATTGGGATCACTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022593:ENSRNOT00000038452:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(10.9=100)
A:
NA
C2:
PF0126619=DAO=FE(13.9=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:
GGCGTATGAGCTGGGTTTGTC
R:
GTGATCCCAATCTTCCCGAAGG
Band lengths:
262-1186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]