HsaINT0124458 @ hg38
Intron Retention
Gene
ENSG00000175287 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr9:128921930-128922356:+
Coord C1 exon
chr9:128921930-128922047
Coord A exon
chr9:128922048-128922282
Coord C2 exon
chr9:128922283-128922356
Length
235 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
AACTTTCTCCTCCCCACCAGGAG
3' ss Score
8.74
Exon sequences
Seq C1 exon
ATTGAGGCCTAGAGAGAGGCAGGCGTTCCTCAGAGTCACAGGGAATGGCGGCGCCTGGACTGGGACTCAGCCCAGCTGCTTGGCCTGACCCTCTCACAGCATAATTTCCCGGCACCTG
Seq A exon
GTAAGCAGTGGTGGGGGGTGGTTTCCAGAAGAAACACAGAGGAAGCAGATAAAATCCTTGGAGATGGGAAAGGGCAAATCCTGGATTAGTTGTGGGGGTGGGGGAGATTAGCCTGGAGGTCACAGGCTGATCTGGCTGTGTCTAGGGAAGGAGGGTTGGGTGGTGGGACCGGGTTTTCTCCGGGTAGGGAAGGGTTAAGTCCTCCCAGGCTCCTAAACTTTCTCCTCCCCACCAG
Seq C2 exon
GAGGCCGCGCTTAGAAGCCGCCCAGTGCCCTGAGCGTCTCCATGGCCTGCCTGAGCCCCTCGCAGCTCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175287:ENST00000372592:2
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:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
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:
CTAGAGAGAGGCAGGCGTTCC
R:
CTTCTGGAGCTGCGAGGGG
Band lengths:
184-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development