HsaINT0044515 @ hg19
Intron Retention
Gene
ENSG00000228314 | CYP4F3
Description
cytochrome P450, family 4, subfamily F, polypeptide 29, pseudogene [Source:HGNC Symbol;Acc:2647]
Coordinates
chr19:15756529-15757915:+
Coord C1 exon
chr19:15756529-15756673
Coord A exon
chr19:15756674-15757861
Coord C2 exon
chr19:15757862-15757915
Length
1188 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAC
5' ss Score
6.89
3' ss Seq
ATTGTCCTCATTTATGTCAGCTG
3' ss Score
5.59
Exon sequences
Seq C1 exon
ATTCACAGCTCGGAGGAAGGTCTCCTATACACACAAAGCCTGGCATGCACCTTCGGTGATATGTGCTGCTGGTGGGTGGGGCCCTGGCACGCAATCGTCCGCATCTTCCACCCCACCTACATCAAGCCTGTGCTCTTTGCTCCAG
Seq A exon
GTAGACACTGCACTGGCCACTCCAGGTAGACACTGCACTGGCCACGCCTTGCCCACAGCTGGGGTCTCTGTGCTGCCTCCAGCGGGTCGCGTGCCCATGTGCAGACAGGAGGGGCTGTGGTGGAGATGCCACTGCTTCCATCTCCCCTGGACTTCCATCTGTCTGACCTCTGTTCCTGTTTGCTCATGTCTGGGAAGTGTCTCTATGGTGGCTGTTATATGGTCAAGTCTGCTGTACGGCTACGTCTTGTCACCTGTATATTTACACCTGGGTCCTGGTTACACCTGAAATATGTTATACCCGGTTACATCTGGTATATCATTCCAACTGAGGTCATGTAGAGCTGGTCATGTGTGGAGTTCATGTGTGGCCAAGGACATTTGGGGCATGTGAGGGGCTGTTTTGTTCTTGTCGCAGGTGCTGTTTGACACTGCCGTTTTCTCCTGCTGGTCACATCTGGGCCATGTTTGGGGGTTGTGTGAGGTCTGGGACCCAGGGTCCCTAAGTGAACTGTCTGAGACATTATTTGAGTCTTGTCTGAGGCATGTGTTGTAGTATGTTTGGGTCATACGTGAGGAACAGTCTGGGTCACGTGTTGGCTATGTCTGGGTCGTTAAAGGTACCATATTTATATTCAACCTGGAGCCTGTATGTGGAACACGCTTTTAAGGTCATGTTAGACCATCTCATGTGCATGTTAGAGCATACCATCTCATGTTAGGAATTGTCATGTATTTTGTGGCCATGTCAGGACTTGTGAACACATGTCAGTGTCATGTCTCATGTCTAGGTCCATGTCAGAAGATGCCATGTGAGAATATGTCAGAGAGTGCTGGGACAGACAGGGTGTCCTAAGTCCTTGTGAAGGCATTCTGTAGAGTGCTGAGCGTGTTCAGGGTTTGCAGAACATGTTGGATCATGTAGGAGGCATGTCAAGGCATGCTGGAGCCCTGACATAGCTCCTACGTGCCATGTTAGGCAGTGTCATTGCTGTGCTGTGCTGCCGTAGCCTGGTCTGGTCTTCCCTCCCCTCCCCCATCCTGCCTTCTTCCTCTCCCCTTGACCCTCTTCTTGCTATGTGGGGCTTGGAGGGAAGAAGTGCAAACCTCTTGCTGGGAGCCTCCCCCCACCCCCAAAGTTCCTCCTTCACCTGCCTCCATGGCCCCTGATTGTCCTCATTTATGTCAG
Seq C2 exon
CTGCCATTGTACCAAAGGACAAGGTCTTCTACAGCTTCCTGAAGCCCTGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000228314-CYP4F3:NM_000896:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCACAGCTCGGAGGAAGGT
R:
GGAAGCTGTAGAAGACCTTGTCC
Band lengths:
184-1372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)