RnoINT0109330 @ rn6
Intron Retention
Gene
ENSRNOG00000022593 | Pdpr
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:RGD Symbol;Acc:1308307]
Coordinates
chr19:43115020-43116425:-
Coord C1 exon
chr19:43116331-43116425
Coord A exon
chr19:43115110-43116330
Coord C2 exon
chr19:43115020-43115109
Length
1221 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGCTTTCTTTTTCTTTGCAGGAG
3' ss Score
11.64
Exon sequences
Seq C1 exon
CCCTCAATCTGATTGGCCCTCGAGCTGTGGACGTGCTGTCTGAGTTGTCCTATGCCCCTATGACTCCAGACCACTTTCCAACTCTCTTTTGCAAG
Seq A exon
GTAGGTGCTAGTAATTTATTTTTTTGTGATCAGAGTCTCAGTTAGTGGATGCAGGTCTTAAACTTGTTATGTAGCTGAGAATGACCTTACACTTCTGATCTTCTTCCTTCAGTGCTGTGAATGCAGGTGTATGTATGTGTAATTGATTATATGAGAATCAACCCATAGATTCATGCATGCTAGGCAAGCATTCCCACTAACTGAGCCACATTCCCAGCAGTTCTGTTTTTTTAAATGTTAAAGACTGTTTCTTTTATAGTGATGGCAGGTTCTTATTCTTAATATGGTGTTAATACTTAAACAATGTTGTGACCTTTATTAAGCAAGCAAAATGACCAAGCAAATTTTATTTTTTACTTCTAAGCCTGCTTTATTTAGTAAGGATTAGAATATTCCCTGAAGTATATTTAATGTCTTTGAATGTCAGGTCAGGTATGTATATTTTTTGGTTTCTGTAGCACCTGAATTACCTTAAGGTAACAGTAAAATGCACACCGAGGTCAGATTTTTTTCTCTTTGCATTTCCTGTTTTTGTTTTTATACTTATAAGATTGCATGTGTGCCATCTTCAGGGAACCCTAAACAAAAGCAACAAGTTGCCTGACACACACTACAACCGAGTGACTGAATGCTTTGCAGGAAGCAGTCACTCAGCCACTTCGGACATGCACCATCCCTGGAGGAACTGGAAAGTTCAAACCTGAGTTGAGATTCTCAGAGCAAATTGCTTAGTAATTTCCTCTGTTCTCCCAAGCAGAGCAAACTCCCATGTTAGTGAACAGACCCCTCTACAGTCTTTGTGCTTTAAAAAGTGACCCAGCCCATCCAGCTGTGGCTGGCGATGCCTTATCTTGTCAGATTCATGTGGAGGTGGCTCATGTCAGTGCTGGCTCACACCCGCCCGTTATAGAGCAGTAGTTGTACCCATGACCTTTTCAAGGCAACCGAGTCTCTGGTCCCAGAGTATATGAATTCTATTCTGTGGGCATTGTCCTCTTTGTGTCAGATGCCTGAAGCTGGCACATAGAGTTCCCCAGAGAAGACACTTGATTGGTCTTCATTGTTCCTTATGTTACTCGGGTAACGCAATTGTTTGAGCATGAGTTGGTAAAGAGAAATGCTTTCCTTGGCTATAGCCCTTCAAGGGTTTAACAGAGGGTGGGTACTGACAAGGTTCCTGTCCCGAGGGACTAGTGCTGACTGCTTTCTTTTTCTTTGCAG
Seq C2 exon
GAGATGAGTGTGGGCTATGCAAATGGGATCCGGGTGATGAGTATGACTCACACAGGAGAACCAGGATTCATGCTGTATATCCCCATAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022593:ENSRNOT00000038452:15
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:
PF0157116=GCV_T=FE(14.2=100)
A:
NA
C2:
PF0157116=GCV_T=FE(13.3=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:
CCTCAATCTGATTGGCCCTCG
R:
TCTATGGGGATATACAGCATGAATCC
Band lengths:
183-1404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]