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Hmcn1 hemicentin 1 [ Mus musculus (house mouse) ]

Gene ID: 545370, updated on 14-Apr-2024

Summary

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Official Symbol
Hmcn1provided by MGI
Official Full Name
hemicentin 1provided by MGI
Primary source
MGI:MGI:2685047
See related
Ensembl:ENSMUSG00000066842 AllianceGenome:MGI:2685047
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
Gm201; FIBL-6; EG545370
Summary
Predicted to enable calcium ion binding activity. Predicted to be an extracellular matrix structural constituent. Acts upstream of or within response to bacterium. Located in several cellular components, including basement membrane; cell cortex; and extracellular region. Is expressed in several structures, including brain; early embryo; olfactory epithelium; skin; and tongue. Human ortholog(s) of this gene implicated in age related macular degeneration 1. Orthologous to human HMCN1 (hemicentin 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in lung adult (RPKM 6.3), limb E14.5 (RPKM 5.8) and 16 other tissues See more
Orthologs
human all
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Genomic context

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See Hmcn1 in Genome Data Viewer
Location:
1 G1; 1 63.84 cM
Exon count:
108
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (150438251..150869568, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (150562500..150993652, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene spindle and kinetochore associated complex subunit 2-like, pseudogene Neighboring gene predicted gene, 33818 Neighboring gene STARR-positive B cell enhancer mm9_chr1:152856440-152856740 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:152872392-152872545 Neighboring gene predicted gene, 36297 Neighboring gene predicted gene, 22756 Neighboring gene predicted gene, 36139 Neighboring gene predicted gene, 36077

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Fibulin-6 regulates pro-fibrotic TGF-β responses in neonatal mouse ventricular cardiac fibroblasts. Chowdhury A, et al. Sci Rep, 2017 Feb 17. PMID 28209981, Free PMC Article
  2. Mammalian hemicentin 1 is assembled into tracks in the extracellular matrix of multiple tissues. Lin MH, et al. Dev Dyn, 2020 Jun. PMID 32035013, Free PMC Article
  3. Expression of fibulin-6 in failing hearts and its role for cardiac fibroblast migration. Chowdhury A, et al. Cardiovasc Res, 2014 Sep 1. PMID 24951538
  4. Vertebrate extracellular matrix protein hemicentin-1 interacts physically and genetically with basement membrane protein nidogen-2. Zhang JL, et al. Matrix Biol, 2022 Sep. PMID 36007682, Free PMC Article
  5. Hemicentin-1 is an essential extracellular matrix component of the dermal-epidermal and myotendinous junctions. Welcker D, et al. Sci Rep, 2021 Sep 9. PMID 34504132, Free PMC Article

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Identify HMCN1 as a new molecule involved in the dynamic changes of podocyte foot processes in glomerular disease.
    Title: Hemicentin 1 influences podocyte dynamic changes in glomerular diseases.
  2. In fibulin-6 knockdown fibroblasts TGF-beta dependent migration, stress fiber formation, cellular networking and subsequently fibroblast wound contraction is almost abrogated.
    Title: Fibulin-6 regulates pro-fibrotic TGF-β responses in neonatal mouse ventricular cardiac fibroblasts.
  3. Fibulin-6, a fibroblast-released extracellular matrix protein, may play an important role during myocardial remodelling by imparting an effect on cardiac fibroblasts migration in close and complementary interplay with TGF-beta1 signalling
    Title: Expression of fibulin-6 in failing hearts and its role for cardiac fibroblast migration.
  4. This study showed that extracellular hemicentin-1[Hmcn1] assemble at the cleavage furrow of dividing cells in the C. elegans germline and in preimplantation mouse embryos.
    Title: A secreted protein promotes cleavage furrow maturation during cytokinesis.
Submit: New GeneRIF Correction

Variation

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Alleles

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

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables extracellular matrix structural constituent RCA
inferred from Reviewed Computational Analysis
more info
 PubMed 
Process Evidence Code Pubs
involved_in actin cytoskeleton organization ISO
Inferred from Sequence Orthology
more info
  
involved_in basement membrane organization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within cell cycle IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within cell division IEA
Inferred from Electronic Annotation
more info
  
involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in homophilic cell adhesion via plasma membrane adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within response to bacterium IEP
Inferred from Expression Pattern
more info
 PubMed 
Component Evidence Code Pubs
is_active_in adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in anchoring junction IEA
Inferred from Electronic Annotation
more info
  
located_in basement membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell cortex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell junction IDA
Inferred from Direct Assay
more info
 PubMed 
located_in collagen-containing extracellular matrix HDA PubMed 
is_active_in collagen-containing extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in extracellular region IDA
Inferred from Direct Assay
more info
 PubMed 
located_in muscle tendon junction IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
hemicentin-1
Names
fibulin-6

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)

  1. NM_001024720.4 → NP_001019891.2  hemicentin-1 precursor

    Status: VALIDATED

    Source sequence(s)
    AC111145, AC113326, AC115051, AC124120
    Consensus CDS
    CCDS15357.2
    UniProtKB/Swiss-Prot
    D3YXG0, D3Z2Q7
    Related
    ENSMUSP00000074340.6, ENSMUST00000074783.12
    Conserved Domains (13) summary
    cd00096
    Location:1188 → 1254
    Ig; Immunoglobulin domain
    smart00408
    Location:2492 → 2556
    IGc2; Immunoglobulin C-2 Type
    smart00179
    Location:5431 → 5470
    EGF_CA; Calcium-binding EGF-like domain
    smart00209
    Location:4588 → 4640
    TSP1; Thrombospondin type 1 repeats
    smart00409
    Location:1459 → 1541
    IG; Immunoglobulin
    smart00410
    Location:1833 → 1914
    IG_like; Immunoglobulin like
    smart00682
    Location:4867 → 5091
    G2F; G2 nidogen domain and fibulin
    cd00054
    Location:5229 → 5262
    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 ...
    pfam07679
    Location:2477 → 2566
    I-set; Immunoglobulin I-set domain
    pfam00047
    Location:528 → 606
    ig; Immunoglobulin domain
    pfam07645
    Location:5271 → 5312
    EGF_CA; Calcium-binding EGF domain
    pfam13519
    Location:42 → 212
    VWA_2; von Willebrand factor type A domain
    cl11960
    Location:3243 → 3337
    Ig; Immunoglobulin domain

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

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    150438251..150869568 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006529758.5 → XP_006529821.1  hemicentin-1 isoform X2

    Related
    ENSMUSP00000121500.3, ENSMUST00000137197.9
    Conserved Domains (12) summary
    smart00179
    Location:5338 → 5377
    EGF_CA; Calcium-binding EGF-like domain
    smart00209
    Location:4612 → 4664
    TSP1; Thrombospondin type 1 repeats
    smart00409
    Location:3558 → 3639
    IG; Immunoglobulin
    smart00410
    Location:1459 → 1541
    IG_like; Immunoglobulin like
    smart00682
    Location:4891 → 5115
    G2F; G2 nidogen domain and fibulin
    cd00054
    Location:5253 → 5286
    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 ...
    cd00198
    Location:42 → 198
    vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
    pfam07645
    Location:5295 → 5336
    EGF_CA; Calcium-binding EGF domain
    cd00096
    Location:3192 → 3260
    Ig; Immunoglobulin domain
    pfam07679
    Location:2501 → 2590
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:2313 → 2390
    Ig_3; Immunoglobulin domain
    cl11960
    Location:3267 → 3361
    Ig; Immunoglobulin domain

  2. XM_006529757.5 → XP_006529820.1  hemicentin-1 isoform X1

    Conserved Domains (11) summary
    smart00179
    Location:5455 → 5494
    EGF_CA; Calcium-binding EGF-like domain
    smart00209
    Location:4612 → 4664
    TSP1; Thrombospondin type 1 repeats
    smart00410
    Location:1459 → 1541
    IG_like; Immunoglobulin like
    smart00682
    Location:4891 → 5115
    G2F; G2 nidogen domain and fibulin
    cd00054
    Location:5253 → 5286
    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 ...
    cd00198
    Location:42 → 198
    vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
    pfam07645
    Location:5295 → 5336
    EGF_CA; Calcium-binding EGF domain
    cd00096
    Location:3192 → 3260
    Ig; Immunoglobulin domain
    pfam07679
    Location:2501 → 2590
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:2313 → 2390
    Ig_3; Immunoglobulin domain
    cl11960
    Location:3267 → 3361
    Ig; Immunoglobulin domain

  3. XM_011248051.3 → XP_011246353.1  hemicentin-1 isoform X3

    Conserved Domains (11) summary
    smart00179
    Location:4810 → 4849
    EGF_CA; Calcium-binding EGF-like domain
    smart00209
    Location:3967 → 4019
    TSP1; Thrombospondin type 1 repeats
    smart00409
    Location:2913 → 2994
    IG; Immunoglobulin
    smart00410
    Location:814 → 896
    IG_like; Immunoglobulin like
    smart00682
    Location:4246 → 4470
    G2F; G2 nidogen domain and fibulin
    cd00054
    Location:4608 → 4641
    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 ...
    pfam07645
    Location:4650 → 4691
    EGF_CA; Calcium-binding EGF domain
    cd00096
    Location:2547 → 2615
    Ig; Immunoglobulin domain
    pfam07679
    Location:1856 → 1945
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:1668 → 1745
    Ig_3; Immunoglobulin domain
    cl11960
    Location:2622 → 2716
    Ig; Immunoglobulin domain

RNA

  1. XR_387184.5 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
D3YXG0.1 GenPept UniProtKB/Swiss-Prot:D3YXG0

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