RnoINT0116858 @ rn6
Intron Retention
Gene
ENSRNOG00000000435 | Ppt2
Description
palmitoyl-protein thioesterase 2 [Source:RGD Symbol;Acc:620375]
Coordinates
chr20:4389817-4390436:-
Coord C1 exon
chr20:4390342-4390436
Coord A exon
chr20:4390008-4390341
Coord C2 exon
chr20:4389817-4390007
Length
334 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
AGCCTTTCGTTCCTTCTCAGGTG
3' ss Score
9.27
Exon sequences
Seq C1 exon
CGCTCTCCTTGTCCCCTTTTCCCCCCGTACCCCGTGGATTCCCGACTAGGTACAAGTAAACAGCTGGCGGAACGAAGCCTCCAGACACAGGCCAG
Seq A exon
GTGGGAGTTTCCACTCTCTGTGTGTACTGGGCCTCTGTTCCCTGGTCTTTGCAGATCTCGGAGTAGTGCATGGTCGAGGTGATGCTTAAGGAAGATCCTGGGCCTTGGGACCAAGTCCCTTGAGCGCCAAGTTGGGGGCGGGACTTAGGGTGAGCTTTGGTGCATGGAGGTGGTAGGGGGTGTGTTTGTGGCAGCTATCTGGATGGAGTAAGTTAAAAGTAGCCTGTCGTCACAAGGACAGGAGTAGGAACGGAGGCGGGAGAGTTGCTTGCTGTGAGTCTGTTTGGAGGTGGGGGGTGGTCCGTCTCCCTCACAGCCTTTCGTTCCTTCTCAG
Seq C2 exon
GTGGGAGCATGCCGGGGCTATGGAGGCAGAGGCTTCCTTCGGCTTGGGCTTTGCTTCTCCTGCCTTTCCTGCCGCTGCTGTTGCCCGCAGCCCCCGCACCCCACCGCGGGTCCTACAAGCCAGTGATCGTGGTGCATGGGCTCTTTGACAGTTCATACAGCTTCCGCCACCTGCTGGACTACATCAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000435:ENSRNOT00000000497:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0208910=Palm_thioest=PU(11.1=49.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTCTCCTTGTCCCCTTTTC
R:
CTCATTGATGTAGTCCAGCAGGT
Band lengths:
286-620
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]