Dnaaf4 dynein axonemal assembly factor 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Dnaaf4provided by RGD
Official Full Name: dynein axonemal assembly factor 4provided by RGD
Primary source: RGD:1549760
See related: EnsemblRapid:ENSRNOG00000056654 AllianceGenome:RGD:1549760
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Ekn1; Edem2; Dyx1c1
Summary: Enables nuclear estrogen receptor binding activity. Involved in neuron migration. Located in centrosome; cytoplasm; and non-motile cilium. Human ortholog(s) of this gene implicated in dyslexia and primary ciliary dyskinesia 25. Orthologous to human DNAAF4 (dynein axonemal assembly factor 4). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Testes (RPKM 27.2), Lung (RPKM 11.7) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q24

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (82577044..82601653)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (73696394..73711315)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (79637678..79651892)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Study describes the impact of Dyx1c1 on behavioral functions similar to those affected in language-impaired populations as well as information about changes to the brain following early disruption of this candidate dyslexia susceptibility gene
Title: Knockdown of the candidate dyslexia susceptibility gene homolog dyx1c1 in rodents: effects on auditory processing, visual attention, and cortical and thalamic anatomy.
Transfection with Dyx1c1 small hairpin shRNA results from both cell autonomous and non-cell autonomous effects. There is no evidence to support non-cell autonomous disruption of neuronal position in the cerebral cortex itself.
Title: The effects of embryonic knockdown of the candidate dyslexia susceptibility gene homologue Dyx1c1 on the distribution of GABAergic neurons in the cerebral cortex.
These results provide further support for the role of Dyx1c1 in neuronal migration and working memory
Title: Persistent spatial working memory deficits in rats following in utero RNAi of Dyx1c1.
DYX1C1 comlexes with ERalpha or ERbeta at endogenous levels along neurites of primary rat hippocampal neurons.
Title: Functional interaction of DYX1C1 with estrogen receptors suggests involvement of hormonal pathways in dyslexia.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables nuclear estrogen receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear estrogen receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables nuclear estrogen receptor binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in cilium movement	IEA Inferred from Electronic Annotation more info
involved_in cilium movement	ISO Inferred from Sequence Orthology more info
involved_in cilium movement	ISS Inferred from Sequence or Structural Similarity more info
involved_in determination of left/right symmetry	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within determination of left/right symmetry	ISO Inferred from Sequence Orthology more info
involved_in determination of left/right symmetry	ISO Inferred from Sequence Orthology more info
involved_in determination of left/right symmetry	ISS Inferred from Sequence or Structural Similarity more info
involved_in epithelial cilium movement involved in extracellular fluid movement	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within epithelial cilium movement involved in extracellular fluid movement	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of localization in cell	ISO Inferred from Sequence Orthology more info
involved_in heart development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within heart development	ISO Inferred from Sequence Orthology more info
involved_in inner dynein arm assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in inner dynein arm assembly	ISO Inferred from Sequence Orthology more info
involved_in inner dynein arm assembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within learning or memory	ISO Inferred from Sequence Orthology more info
involved_in nervous system development	IEA Inferred from Electronic Annotation more info
involved_in neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in outer dynein arm assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in outer dynein arm assembly	ISO Inferred from Sequence Orthology more info
involved_in outer dynein arm assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of intracellular estrogen receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in regulation of intracellular estrogen receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of proteasomal protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of proteasomal protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in centrosome	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in dynein axonemal particle	IEA Inferred from Electronic Annotation more info
located_in dynein axonemal particle	ISS Inferred from Sequence or Structural Similarity more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in neuron projection	IEA Inferred from Electronic Annotation more info
located_in non-motile cilium	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: dynein axonemal assembly factor 4

Names: dynein assembly factor 4, axonemal; dyslexia susceptibility 1 candidate 1 homolog; dyslexia susceptibility 1 candidate gene 1 protein homolog

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001007010.1 → NP_001007011.1 dynein axonemal assembly factor 4

See identical proteins and their annotated locations for NP_001007011.1

Status: PROVISIONAL

Source sequence(s)

AY428506

UniProtKB/Swiss-Prot

Q5VJS5

UniProtKB/TrEMBL

A0A8I6AHU0

Related

ENSRNOP00000072890.2, ENSRNOT00000085959.3

Conserved Domains (5) summary

cd06469
Location:10 → 87

p23_DYX1C1_like; p23_like domain found in proteins similar to dyslexia susceptibility 1 (DYX1) candidate 1 (C1) protein, DYX1C1. The human gene encoding this protein is a positional candidate gene for developmental dyslexia (DD), it is located on 15q21.3 by the DYX1 DD ...

sd00006
Location:288 → 316

TPR; TPR repeat [structural motif]

pfam00515
Location:322 → 351

TPR_1; Tetratricopeptide repeat

pfam13414
Location:287 → 351

TPR_11; TPR repeat

pfam13424
Location:318 → 396

TPR_12; Tetratricopeptide repeat

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086026.1 Reference GRCr8

Range

82577044..82601653

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006243329.5 → XP_006243391.1 dynein axonemal assembly factor 4 isoform X1

UniProtKB/TrEMBL

A0A8I6AHU0

Conserved Domains (3) summary

cd06469
Location:10 → 87

p23_DYX1C1_like; p23_like domain found in proteins similar to dyslexia susceptibility 1 (DYX1) candidate 1 (C1) protein, DYX1C1. The human gene encoding this protein is a positional candidate gene for developmental dyslexia (DD), it is located on 15q21.3 by the DYX1 DD ...

sd00006
Location:288 → 316

TPR; TPR repeat [structural motif]

pfam13414
Location:287 → 351

TPR_11; TPR repeat