RnoINT0116862 @ rn6
Intron Retention
Gene
ENSRNOG00000000435 | Ppt2
Description
palmitoyl-protein thioesterase 2 [Source:RGD Symbol;Acc:620375]
Coordinates
chr20:4387267-4388940:-
Coord C1 exon
chr20:4388833-4388940
Coord A exon
chr20:4387351-4388832
Coord C2 exon
chr20:4387267-4387350
Length
1482 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
TAACTGCTGTTTGCACTCAGACC
3' ss Score
6.9
Exon sequences
Seq C1 exon
ACACGGACTATTTGAAGTGGCTGTTCCCTACGTCCATGCGGTCTAACCTCTATCGGATCTGCTATAGCCCCTGGGGCCAGGAATTTTCCATTTGCAACTACTGGCACG
Seq A exon
GTGAGTCTGAGTCGGGGGCGGTGAGGTGGGGCCTCTGCCCGGGGCTCCGTGGAGGGTGGGGCCTGCTGCTCCCACTCTGCCGTAACCATAGCAACAGCTTCTGCTTATCTAATACTTATCAAATAGGCCACCGTTCAGAACGTGGTATGCAAACCAGCCAGTTGCCTCAAAGAGGCAAAATTAAAAAAAAAAAACAAACCAGAAAAACGGCTTATTATCTTTATTGTTAGTGTGTCTCTCTGCATGCATGGATGTGTGTGCACACTCAACGTGTGTGTGGGTGTGTGTGCACATGCGTGTGCATGCTCATGTCGAATTTATGTAGAGTCTGTTTTCTCTCTCCACCATTGTGGGTCCCAGTTTGGCTGCTACAGTGTGGACCATAGGCCCTATGGTGGCTGTAATCATTCAATGAGAAAAACACTGTCACCAGCTCATACAGGGTACCAGATAGTGTCTTCCAGTCTGCTCACTCATGGTGGTGCACCCCTTTAATCCCAGCGCTTGAGAGGCAGAGGCTTCTGCGTTTGAAGCCACCATGAATTACATAGGAGTCCTGGGACAGCCGGGACTAAATAGACCCTGTCTCGAAAAGCAAACAAAACCAAACCCCAAAATTGCCTTCCGTTATGTTGAGGTTATTTTTTATTCTTTTATCTTTGCTATTACATTTATGTTTGTATTTTATGTACACCTGCACACCAGAAGATGGCATCAGACTATTGTGAGCCACCACGTGGTTGCTGGGAATTGAACTTGGGACCTCTGGAAGAGCAGTGGGTGCTCTAACCACTGAGCCGTCTCTCCAGCCCCAGTCTTTACTATTACTGAGGTCTCCTGACTTGACCATCCTGCTTCTAACACACTGCTTCCTTTTTAAATTGTATACTGGTGGGTTTTCCTTTTTAATCTGCGTATTGGTGTGCCACACAGATGCCTGTGGAGGCCAGAGGAGGGCACTGGATCCCCTGGGGATGGGATTACAGTTGTAAGCTGCCGTGTGGTTGTTGGGAATTGAACCCGAGTCCTAGAAGAACCCAGTGCTTTTTTTTTTTTAAATAATATATATTGGTTGTTCTTATTTATTGATTATATATGAATACACTGTCACTCTCTTCAGACTTACCAGAAGAGGGCATCAGGTCTCATTACAGATGGCTGTGAGCCATCGTGTGGTTGCTAGGAATTGAACTCAGGACCTCTGGGAGAGCAGTCAGTACTGAGCCATCTCCCCAGCCCCGCATCCAGTGCTCTTAACTACTAAGCCAGTCCTCCGGCCCCCTTGAACTCTATGTAGCCAAGGATGACTTTGAACGTCTGAGTCTCCTGACTTAACATCCTGAGTGCTAGGATTATAGGTGTGTACCATCTATGCTTGGTTCATGTGGTACATGAGGTCAAACCCCAGGGCCTTAGGCGTACTAGGCAGGCACGTGATCTGTCACACATCCCCAGTCCCTGCTAACTGCTGTTTGCACTCAG
Seq C2 exon
ACCCTCACCACGATGACTTGTACCTCAACGCCAGCAGCTTTCTGGCCCTCATCAATGGGGAGAGAGACCATCCGAATGCCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000435:ENSRNOT00000000497:5
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:
PF0208910=Palm_thioest=FE(13.3=100)
A:
NA
C2:
PF0208910=Palm_thioest=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGGACTATTTGAAGTGGCTGT
R:
CAGTGGCATTCGGATGGTCTC
Band lengths:
190-1672
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]