Nsmf NMDA receptor synaptonuclear signaling and neuronal migration factor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nsmfprovided by RGD
Official Full Name: NMDA receptor synaptonuclear signaling and neuronal migration factorprovided by RGD
Primary source: RGD:619819
See related: Ensembl:ENSRNOG00000008810 AllianceGenome:RGD:619819
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: Jac; Nelf; Jacob
Summary: Enables calcium-dependent protein binding activity. Involved in several processes, including cellular response to electrical stimulus; postsynapse to nucleus signaling pathway; and regulation of dendrite morphogenesis. Located in several cellular components, including dendrite; euchromatin; and nucleus. Is active in glutamatergic synapse and postsynapse. Human ortholog(s) of this gene implicated in hypogonadotropic hypogonadism 7 with or without anosmia and hypogonadotropic hypogonadism 9 with or without anosmia. Orthologous to human NSMF (NMDA receptor synaptonuclear signaling and neuronal migration factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 434.0), Lung (RPKM 47.2) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3p13

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (28260018..28268790)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (7861846..7870615)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (2262173..2270996)

Chromosome 3 - NC_086021.1 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?

The nuclear lamina is a hub for the nuclear function of Jacob.
Title: The nuclear lamina is a hub for the nuclear function of Jacob.
Nsmf is a novel myogenic factor that can enhance myoblast proliferation.
Title: N-methyl D-aspartate receptor synaptonuclear signaling and neuronal migration factor (Nsmf) plays a novel role in myoblast proliferation.
data support a synaptic and nuclear role of Jacob that implicates long-distance NMDAR signaling to the nucleus in excitatory neurons
Title: Cellular distribution of the NMDA-receptor activated synapto-nuclear messenger Jacob in the rat brain.
Study demonstrates that Jacob is a protein messenger that encodes the origin of synaptic versus extrasynaptic N-methyl-D-aspartate-receptors signals and delivers them to the nucleus.
Title: Encoding and transducing the synaptic or extrasynaptic origin of NMDA receptor signals to the nucleus.
Nuclear translocation of jacob in hippocampal neurons after stimuli inducing long-term potentiation but not long-term depression.
Title: Nuclear translocation of jacob in hippocampal neurons after stimuli inducing long-term potentiation but not long-term depression.
Calpain-mediated clipping of the myristoylated N terminus of Jacob is required for its nuclear translocation after N-methyl-d-aspartate receptor activation
Title: Dendritic mRNA targeting of Jacob and N-methyl-d-aspartate-induced nuclear translocation after calpain-mediated proteolysis.
Results suggest that the transcription elongation factors NELF, DSIF and P-TEFb control constitutive transcription of the histone H1(0) and GAPDH genes.
Title: The transcription elongation factors NELF, DSIF and P-TEFb control constitutive transcription in a gene-specific manner.
NELF controls overall immediate early gene transcription via multiple mechanisms both directly and indirectly.
Title: Negative elongation factor NELF controls transcription of immediate early genes in a stimulus-specific manner.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

UniSTS:224573 (e-PCR)
- UniSTS:224573

RH132853 (e-PCR)
- UniSTS:216136

RH132502 (e-PCR)
- UniSTS:215785

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium-dependent protein binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in cellular response to amino acid stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to electrical stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to gonadotropin stimulus	IEA Inferred from Electronic Annotation more info
involved_in cellular response to gonadotropin stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to gonadotropin stimulus	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of neuron migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of neuron migration	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of neuron migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuron migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of protein dephosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in postsynapse to nucleus signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in postsynapse to nucleus signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of dendrite morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of neuron apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of neuron migration	IEA Inferred from Electronic Annotation more info
involved_in regulation of neuronal synaptic plasticity	IEA Inferred from Electronic Annotation more info
involved_in regulation of neuronal synaptic plasticity	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in apical dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in cortical cytoskeleton	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation 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 dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in dendritic spine	IDA Inferred from Direct Assay more info	PubMed
part_of euchromatin	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
located_in neuron projection	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear envelope	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear matrix	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear membrane	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
located_in perikaryon	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
is_active_in postsynapse	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
located_in synapse	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: NMDA receptor synaptonuclear signaling and neuronal migration factor

Names: juxtasynaptic attractor of caldendrin on dendritic boutons protein; nasal embryonic LHRH factor; nasal embryonic luteinizing hormone-releasing hormone factor

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_001270626.1 → NP_001257555.1 NMDA receptor synaptonuclear signaling and neuronal migration factor isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

BC087719, JAXUCZ010000003

UniProtKB/TrEMBL

D3ZVR5, D4A9M2

Related

ENSRNOP00000044714.3, ENSRNOT00000042100.5
NM_001270627.1 → NP_001257556.1 NMDA receptor synaptonuclear signaling and neuronal migration factor isoform 3

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks two alternate in-frame exons compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

BC087719, JAXUCZ010000003

UniProtKB/TrEMBL

D4A9M2
NM_001270628.1 → NP_001257557.1 NMDA receptor synaptonuclear signaling and neuronal migration factor isoform 4

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks two alternate in-frame exons compared to variant 1. The resulting isoform (4) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

BC087719, JAXUCZ010000003

UniProtKB/TrEMBL

D4A9M2

Related

ENSRNOP00000040572.5, ENSRNOT00000048353.6
NM_001429722.1 → NP_001416651.1 NMDA receptor synaptonuclear signaling and neuronal migration factor isoform 5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

Q5PPF6, Q7TSC6, Q7TSC8, Q9EPI4, Q9EPI5, Q9EPI6
NM_057190.2 → NP_476538.2 NMDA receptor synaptonuclear signaling and neuronal migration factor isoform 1

See identical proteins and their annotated locations for NP_476538.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

BC087719, JAXUCZ010000003

UniProtKB/Swiss-Prot

Q5PPF6, Q7TSC6, Q7TSC8, Q9EPI4, Q9EPI5, Q9EPI6

UniProtKB/TrEMBL

A0A140TAI4

Related

ENSRNOP00000058016.5, ENSRNOT00000061303.5

RNA

NR_073057.1 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (5) lacks an alternate internal exon compared to variant 1, that causes a frameshift. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

BC087719, JAXUCZ010000003

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_086021.1 Reference GRCr8

Range

28260018..28268790

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006233554.5 → XP_006233616.1 NMDA receptor synaptonuclear signaling and neuronal migration factor isoform X2

UniProtKB/Swiss-Prot

Q5PPF6, Q7TSC6, Q7TSC8, Q9EPI4, Q9EPI5, Q9EPI6

UniProtKB/TrEMBL

F1LLY3

Related

ENSRNOP00000012129.7
XM_063283015.1 → XP_063139085.1 NMDA receptor synaptonuclear signaling and neuronal migration factor isoform X3

UniProtKB/Swiss-Prot

Q5PPF6, Q7TSC6, Q7TSC8, Q9EPI4, Q9EPI5, Q9EPI6
XM_063283014.1 → XP_063139084.1 NMDA receptor synaptonuclear signaling and neuronal migration factor isoform X1