Dlk1 delta like non-canonical Notch ligand 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Dlk1provided by MGI
Official Full Name: delta like non-canonical Notch ligand 1provided by MGI
Primary source: MGI:MGI:94900
See related: Ensembl:ENSMUSG00000040856 AllianceGenome:MGI:94900
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: FA1; ZOG; pG2; DlkI; Peg9; SCP1; DLK-1; Ly107; pref-1
Summary: Predicted to enable calcium ion binding activity. Involved in negative regulation of fat cell differentiation and negative regulation of vascular endothelial cell proliferation. Acts upstream of or within several processes, including bone mineralization; negative regulation of Notch signaling pathway; and positive regulation of bone resorption. Located in external side of plasma membrane. Is expressed in several structures, including alimentary system; branchial arch; embryo mesenchyme; genitourinary system; and nervous system. Orthologous to human DLK1 (delta like non-canonical Notch ligand 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in limb E14.5 (RPKM 294.1), liver E14.5 (RPKM 215.8) and 7 other tissues See more
Orthologs: human all
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Genomic context

Location:: 12 F1; 12 60.17 cM

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	12	NC_000078.7 (109418411..109429262)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	12	NC_000078.6 (109452485..109463336)

Chromosome 12 - NC_000078.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Maternal RNA transcription in Dlk1-Dio3 domain is critical for proper development of the mouse placental vasculature.
Title: Maternal RNA transcription in Dlk1-Dio3 domain is critical for proper development of the mouse placental vasculature.
Pericardial delta like non-canonical NOTCH ligand 1 (Dlk1) augments fibrosis in the heart through epithelial to mesenchymal transition.
Title: Pericardial delta like non-canonical NOTCH ligand 1 (Dlk1) augments fibrosis in the heart through epithelial to mesenchymal transition.
Sox6 impairs the adipogenic commitment of mesenchymal stem cells by targeting lysyl oxidase and preadipocyte factor 1.
Title: Sox6 impairs the adipogenic commitment of mesenchymal stem cells by targeting lysyl oxidase and preadipocyte factor 1.
The negative adipogenesis regulator Dlk1 is transcriptionally regulated by Ifrd1 (TIS7) and translationally by its orthologue Ifrd2 (SKMc15).
Title: The negative adipogenesis regulator Dlk1 is transcriptionally regulated by Ifrd1 (TIS7) and translationally by its orthologue Ifrd2 (SKMc15).
Imprinted Dlk1 dosage as a size determinant of the mammalian pituitary gland.
Title: Imprinted Dlk1 dosage as a size determinant of the mammalian pituitary gland.
Effect of epigenetic activating of Dlk1-Dio3 imprinted cluster on miR-370 expression due to folate deficiency during nerve development.
Title: Effect of epigenetic activating of Dlk1-Dio3 imprinted cluster on miR-370 expression due to folate deficiency during nerve development.
Dlk1-Dio3 cluster miRNAs regulate mitochondrial functions in the dystrophic muscle in Duchenne muscular dystrophy.
Title: Dlk1-Dio3 cluster miRNAs regulate mitochondrial functions in the dystrophic muscle in Duchenne muscular dystrophy.
Subnuclear localisation is associated with gene expression more than parental origin at the imprinted Dlk1-Dio3 locus.
Title: Subnuclear localisation is associated with gene expression more than parental origin at the imprinted Dlk1-Dio3 locus.
The Recombinant Eg.P29-Mediated miR-126a-5p Promotes the Differentiation of Mouse Naive CD4(+) T Cells via DLK1-Mediated Notch1 Signal Pathway.
Title: The Recombinant Eg.P29-Mediated miR-126a-5p Promotes the Differentiation of Mouse Naive CD4(+) T Cells via DLK1-Mediated Notch1 Signal Pathway.
Humanization of a tandem repeat in IG-DMR causes stochastic restoration of paternal imprinting at mouse Dlk1-Dio3 domain.
Title: Humanization of a tandem repeat in IG-DMR causes stochastic restoration of paternal imprinting at mouse Dlk1-Dio3 domain.

Submit: New GeneRIF Correction See all GeneRIFs (132)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (7) 1 citation
Endonuclease-mediated (5) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

PMC311216P1 (e-PCR)
- UniSTS:272899

Dlk1 (e-PCR), detects polymorphism
- UniSTS:142852

Dlk1 (e-PCR), detects polymorphism
- UniSTS:526856

Dlk1 (e-PCR), detects polymorphism
- UniSTS:274190

Dlk1 (e-PCR), detects polymorphism
- UniSTS:259600

Dlk1 (e-PCR), detects polymorphism
- UniSTS:516446

BE115497 (e-PCR)
- UniSTS:248164

UniSTS:259449 (e-PCR)
- UniSTS:259449

Dlk1 (e-PCR), detects polymorphism
- UniSTS:259449

NoName (e-PCR)
- UniSTS:236943

PMC316857P1 (e-PCR)
- UniSTS:273056

Dlk1 (e-PCR), detects polymorphism
- UniSTS:532135

Dlk1 (e-PCR), detects polymorphism
- UniSTS:532136

Dlk1 (e-PCR), detects polymorphism
- UniSTS:178354

AW742678 (e-PCR)
- UniSTS:208869

AW060763 (e-PCR)
- UniSTS:180474

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within bone mineralization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryo development	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within embryonic skeletal system development	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within multicellular organism growth	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of Notch signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative regulation of Notch signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of Notch signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of fat cell differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of ossification	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of osteoblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of vascular endothelial cell proliferation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within ossification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within osteoblast differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of bone resorption	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of bone resorption	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cytokine production	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of osteoclast differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within post-embryonic development	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of bone remodeling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in external side of plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular space	ISO Inferred from Sequence Orthology more info
is_active_in membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: protein delta homolog 1

Names: adipocyte differentiation inhibitor protein; delta-like 1 homolog; fetal antigen 1; preadipocyte factor 1; stromal cell derived protein 1

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_001190703.2 → NP_001177632.1 protein delta homolog 1 isoform 2 precursor

See identical proteins and their annotated locations for NP_001177632.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.

Source sequence(s)

AC165954

Consensus CDS

CCDS49173.1

UniProtKB/TrEMBL

E9PVN3, Q9DAU5

Related

ENSMUSP00000105469.2, ENSMUST00000109843.8

Conserved Domains (1) summary

cd00054
Location:88 → 125

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
NM_001190704.2 → NP_001177633.1 protein delta homolog 1 isoform 3 precursor

See identical proteins and their annotated locations for NP_001177633.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 3), compared to isoform 1.

Source sequence(s)

AC165954

Consensus CDS

CCDS56863.1

UniProtKB/TrEMBL

B4YB46, E9PVN2, E9PVN3

Related

ENSMUSP00000105468.3, ENSMUST00000109842.9

Conserved Domains (1) summary

cd00054
Location:177 → 207

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
NM_001190705.2 → NP_001177634.1 protein delta homolog 1 isoform 4 precursor

See identical proteins and their annotated locations for NP_001177634.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 4), compared to isoform 1.

Source sequence(s)

AC165954

Consensus CDS

CCDS49174.1

UniProtKB/TrEMBL

B4YB48, E9PVN3

Related

ENSMUSP00000105472.5, ENSMUST00000109846.11

Conserved Domains (1) summary

cd00054
Location:88 → 125

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
NM_001421736.1 → NP_001408665.1 protein delta homolog 1 isoform 5 precursor

Status: VALIDATED

Source sequence(s)

AC165954

UniProtKB/TrEMBL

G3UWU8
NM_010052.6 → NP_034182.2 protein delta homolog 1 isoform 1 precursor

See identical proteins and their annotated locations for NP_034182.2

Status: VALIDATED

Description

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

Source sequence(s)

AC165954

Consensus CDS

CCDS26168.1

UniProtKB/Swiss-Prot

Q07645, Q09163, Q62208

UniProtKB/TrEMBL

Q925U3

Related

ENSMUSP00000105470.5, ENSMUST00000109844.11

Conserved Domains (1) summary

cd00054
Location:88 → 125

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

RNA

NR_033813.1 RNA Sequence

Status: VALIDATED

Description

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

Source sequence(s)

AC165954, AK133664, CV562715

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000078.7 Reference GRCm39 C57BL/6J

Range

109418411..109429262

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030246536.1 → XP_030102396.1 protein delta homolog 1 isoform X2

UniProtKB/TrEMBL

E9PVN3, G3UWU8

Conserved Domains (1) summary

cd00054
Location:177 → 207

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
XM_011243992.4 → XP_011242294.1 protein delta homolog 1 isoform X1

See identical proteins and their annotated locations for XP_011242294.1

UniProtKB/Swiss-Prot

Q07645, Q09163, Q62208

Conserved Domains (1) summary

cd00054
Location:88 → 125

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...