Fxr1 FMR1 autosomal homolog 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Fxr1provided by RGD
Full Name: FMR1 autosomal homolog 1provided by RGD
Primary source: RGD:1311733
See related: EnsemblRapid:ENSRNOG00000051480 AllianceGenome:RGD:1311733
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Fxr1h
Summary: Predicted to enable several functions, including RNA binding activity; molecular condensate scaffold activity; and protein dimerization activity. Predicted to be involved in several processes, including modulation of chemical synaptic transmission; nucleus organization; and regulation of gene expression. Predicted to be located in several cellular components, including costamere; dendritic spine; and ribosome. Predicted to be active in several cellular components, including cytoplasmic stress granule; glutamatergic synapse; and nuclear envelope. Human ortholog(s) of this gene implicated in congenital myopathy 9A and congenital myopathy 9B. Orthologous to human FXR1 (FMR1 autosomal homolog 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Muscle (RPKM 1745.5), Heart (RPKM 726.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q24

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (118812287..118865813)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (116884167..116937590)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (120529716..120570356, complement)

Chromosome 2 - NC_086020.1 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?

miR-132 Regulates PTSD-like Behaviors in Rats Following Single-Prolonged Stress Through Fragile X-Related Protein 1.
Title: miR-132 Regulates PTSD-like Behaviors in Rats Following Single-Prolonged Stress Through Fragile X-Related Protein 1.
RNA-binding protein FXR1 is presented in rat brain in amyloid form.
Title: RNA-binding protein FXR1 is presented in rat brain in amyloid form.
In dilated cardiomyopathy, increased FXR1 expression appears to play an important role in disease progression by regulating gap junction remodeling and increasing cardiac arrhythmogenesis.
Title: Increased Cardiac Arrhythmogenesis Associated With Gap Junction Remodeling With Upregulation of RNA-Binding Protein FXR1.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BI274570 (e-PCR)
- UniSTS:249125

BI281166 (e-PCR)
- UniSTS:249408

UniSTS:479111 (e-PCR)
- UniSTS:479111

Fxr1h (e-PCR), detects polymorphism
- UniSTS:479111

X90875 (e-PCR)
- UniSTS:125882

RH132222 (e-PCR)
- UniSTS:215505

RH139070 (e-PCR)
- UniSTS:221156

RH123299 (e-PCR)
- UniSTS:135676

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables RNA strand annealing activity	IEA Inferred from Electronic Annotation more info
enables RNA strand annealing activity	ISO Inferred from Sequence Orthology more info
enables RNA strand annealing activity	ISS Inferred from Sequence or Structural Similarity more info
enables mRNA 3'-UTR AU-rich region binding	IEA Inferred from Electronic Annotation more info
enables mRNA 3'-UTR AU-rich region binding	ISO Inferred from Sequence Orthology more info
enables mRNA 3'-UTR AU-rich region binding	ISS Inferred from Sequence or Structural Similarity more info
enables mRNA 3'-UTR binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA 3'-UTR binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables molecular condensate scaffold activity	IEA Inferred from Electronic Annotation more info
enables molecular condensate scaffold activity	ISO Inferred from Sequence Orthology more info
enables molecular condensate scaffold activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein heterodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein heterodimerization activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISS Inferred from Sequence or Structural Similarity more info
enables ribonucleoprotein complex binding	IEA Inferred from Electronic Annotation more info
enables ribonucleoprotein complex binding	ISO Inferred from Sequence Orthology more info
enables translation regulator activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in animal organ development	IBA Inferred from Biological aspect of Ancestor more info
involved_in dentate gyrus development	IEA Inferred from Electronic Annotation more info
involved_in dentate gyrus development	ISO Inferred from Sequence Orthology more info
involved_in dentate gyrus development	ISS Inferred from Sequence or Structural Similarity more info
involved_in mRNA destabilization	IEA Inferred from Electronic Annotation more info
involved_in mRNA destabilization	ISO Inferred from Sequence Orthology more info
involved_in mRNA destabilization	ISS Inferred from Sequence or Structural Similarity more info
involved_in mRNA transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in membraneless organelle assembly	IEA Inferred from Electronic Annotation more info
involved_in membraneless organelle assembly	ISO Inferred from Sequence Orthology more info
involved_in membraneless organelle assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in muscle organ development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within muscle organ development	ISO Inferred from Sequence Orthology more info
involved_in muscle organ development	ISO Inferred from Sequence Orthology more info
involved_in muscle organ development	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of inflammatory response	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of inflammatory response	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of long-term synaptic potentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of long-term synaptic potentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of long-term synaptic potentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of mRNA catabolic process	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of mRNA catabolic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of translation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of translation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of tumor necrosis factor production	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of tumor necrosis factor production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of tumor necrosis factor production	ISS Inferred from Sequence or Structural Similarity more info
involved_in nuclear pore complex assembly	IEA Inferred from Electronic Annotation more info
involved_in nuclear pore complex assembly	ISO Inferred from Sequence Orthology more info
involved_in nuclear pore complex assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in nuclear pore localization	IEA Inferred from Electronic Annotation more info
involved_in nuclear pore localization	ISO Inferred from Sequence Orthology more info
involved_in nuclear pore localization	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of Rho protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of long-term neuronal synaptic plasticity	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of miRNA-mediated gene silencing	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of miRNA-mediated gene silencing	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of miRNA-mediated gene silencing	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of translation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of translation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of translation	ISS Inferred from Sequence or Structural Similarity more info
involved_in post-transcriptional regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in post-transcriptional regulation of gene expression	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of circadian sleep/wake cycle, sleep	IEA Inferred from Electronic Annotation more info
involved_in regulation of circadian sleep/wake cycle, sleep	ISO Inferred from Sequence Orthology more info
involved_in regulation of circadian sleep/wake cycle, sleep	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of mRNA stability	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of neurogenesis	IEA Inferred from Electronic Annotation more info
involved_in regulation of neurogenesis	ISO Inferred from Sequence Orthology more info
involved_in regulation of neurogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of synaptic transmission, glutamatergic	IEA Inferred from Electronic Annotation more info
involved_in regulation of synaptic transmission, glutamatergic	ISO Inferred from Sequence Orthology more info
involved_in regulation of synaptic transmission, glutamatergic	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of translation	IEA Inferred from Electronic Annotation more info
involved_in regulation of translation at presynapse, modulating synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in skeletal muscle organ development	IEA Inferred from Electronic Annotation more info
involved_in skeletal muscle organ development	ISO Inferred from Sequence Orthology more info
involved_in spermatid development	IEA Inferred from Electronic Annotation more info
involved_in spermatid development	ISO Inferred from Sequence Orthology more info
involved_in spermatid development	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in axon	IEA Inferred from Electronic Annotation more info
located_in axon	ISO Inferred from Sequence Orthology more info
located_in costamere	IEA Inferred from Electronic Annotation more info
located_in costamere	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasmic ribonucleoprotein granule	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasmic ribonucleoprotein granule	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasmic ribonucleoprotein granule	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytoplasmic stress granule	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic stress granule	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasmic stress granule	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 dendrite	ISO Inferred from Sequence Orthology more info
located_in dendritic spine	IEA Inferred from Electronic Annotation more info
located_in dendritic spine	ISO Inferred from Sequence Orthology more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in intracellular membraneless organelle	ISO Inferred from Sequence Orthology more info
is_active_in intracellular membraneless organelle	ISS Inferred from Sequence or Structural Similarity more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
located_in nuclear envelope	IEA Inferred from Electronic Annotation more info
is_active_in nuclear envelope	ISO Inferred from Sequence Orthology more info
is_active_in nuclear envelope	ISS Inferred from Sequence or Structural Similarity more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in postsynapse	IEA Inferred from Electronic Annotation more info
is_active_in postsynapse	ISO Inferred from Sequence Orthology more info
located_in presynapse	IEA Inferred from Electronic Annotation more info
located_in ribonucleoprotein granule	ISO Inferred from Sequence Orthology more info
located_in ribosome	IEA Inferred from Electronic Annotation more info
located_in ribosome	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: RNA-binding protein FXR1

Names: rCG41429-like

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_001012179.3 → NP_001012179.2 RNA-binding protein FXR1 isoform 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q5XI81

UniProtKB/TrEMBL

A0A0G2JWD2, A0A3G2LW22

Related

ENSRNOP00000084548.2, ENSRNOT00000101775.2
NM_001415068.1 → NP_001401997.1 RNA-binding protein FXR1 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q5XI81

UniProtKB/TrEMBL

A0A8I6AM03, A6IHT2

Related

ENSRNOP00000110312.1, ENSRNOT00000121093.1
NM_001415069.1 → NP_001401998.1 RNA-binding protein FXR1 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q5XI81
NM_001415070.1 → NP_001401999.1 RNA-binding protein FXR1 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q5XI81

UniProtKB/TrEMBL

A0A8I5ZRV6, A6IHT3

Related

ENSRNOP00000081168.2, ENSRNOT00000103508.2
NM_001415071.1 → NP_001402000.1 RNA-binding protein FXR1 isoform 5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q5XI81

UniProtKB/TrEMBL

A6IHT4

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_086020.1 Reference GRCr8

Range

118812287..118865813

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063282054.1 → XP_063138124.1 RNA-binding protein FXR1 isoform X3

UniProtKB/Swiss-Prot

Q5XI81
XM_039102584.2 → XP_038958512.1 RNA-binding protein FXR1 isoform X2

UniProtKB/Swiss-Prot

Q5XI81

Conserved Domains (7) summary

pfam12235
Location:354 → 465

FXMRP1_C_core; Fragile X-related 1 protein core C terminal

pfam16096
Location:491 → 564

FXR_C1; Fragile X-related 1 protein C-terminal region 2

cd20472
Location:3 → 57

Tudor_Agenet_FXR1_rpt1; first Tudor-like Agenet domain found in fragile X mental retardation syndrome-related protein 1 (FXR1) and similar proteins

cd20475
Location:61 → 126

Tudor_Agenet_FXR1_rpt2; second Tudor-like Agenet domain found in fragile X mental retardation syndrome-related protein 1 (FXR1) and similar proteins

cd22504
Location:123 → 199

KH_I_FXR1_rpt1; first type I K homology (KH) RNA-binding domain found in fragile X mental retardation syndrome-related protein 1 (FXR1) and similar proteins

cd22507
Location:218 → 280

KH_I_FXR1_rpt2; second type I K homology (KH) RNA-binding domain found in fragile X mental retardation syndrome-related protein 1 (FXR1) and similar proteins

cd22510
Location:281 → 358

KH_I_FXR1_rpt3; third type I K homology (KH) RNA-binding domain found in fragile X mental retardation syndrome-related protein 1 (FXR1) and similar proteins
XM_063282059.1 → XP_063138129.1 RNA-binding protein FXR1 isoform X6
XM_063282058.1 → XP_063138128.1 RNA-binding protein FXR1 isoform X6
XM_063282053.1 → XP_063138123.1 RNA-binding protein FXR1 isoform X1
XM_063282055.1 → XP_063138125.1 RNA-binding protein FXR1 isoform X4
XM_063282057.1 → XP_063138127.1 RNA-binding protein FXR1 isoform X5