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NID2 nidogen 2 [ Homo sapiens (human) ]

Gene ID: 22795, updated on 7-Jun-2020

Summary

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Official Symbol
NID2provided by HGNC
Official Full Name
nidogen 2provided by HGNC
Primary source
HGNC:HGNC:13389
See related
Ensembl:ENSG00000087303 MIM:605399
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NID-2
Summary
This gene encodes a member of the nidogen family of basement membrane proteins. This protein is a cell-adhesion protein that binds collagens I and IV and laminin and may be involved in maintaining the structure of the basement membrane.[provided by RefSeq, Jun 2010]
Expression
Broad expression in placenta (RPKM 30.5), thyroid (RPKM 21.7) and 16 other tissues See more
Orthologs
mouse all

Genomic context

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See NID2 in Genome Data Viewer
Location:
14q22.1
Exon count:
22
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 14 NC_000014.9 (52004809..52069059, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (52471520..52535949, complement)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370497 Neighboring gene Sharpr-MPRA regulatory region 5932 Neighboring gene RNA transcription, translation and transport factor Neighboring gene uncharacterized LOC105378180 Neighboring gene CAGE-defined high expression enhancer upstream of NID2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. NID2 can serve as a potential prognosis prediction biomarker and promotes the invasion and migration of gastric cancer. Yu ZH, et al. Pathol Res Pract, 2019 Oct. PMID 31362888
  2. The more potential performance of nidogen 2 methylation by tissue or plasma DNA over brichoalveolar lavage DNA in diagnosis of nonsmall cell lung cancer. Feng X, et al. J Cancer Res Ther, 2018 Jun. PMID 29970687
  3. Elevated levels of serum nidogen-2 in esophageal squamous cell carcinoma. Chai AWY, et al. Cancer Biomark, 2018 Feb 14. PMID 29278876
  4. Metastasis-suppressing NID2, an epigenetically-silenced gene, in the pathogenesis of nasopharyngeal carcinoma and esophageal squamous cell carcinoma. Chai AW, et al. Oncotarget, 2016 Nov 29. PMID 27793011, Free PMC Article
  5. Epithelial basement membrane proteins perlecan and nidogen-2 are up-regulated in stromal cells after epithelial injury in human corneas. Torricelli AA, et al. Exp Eye Res, 2015 May. PMID 25797478, Free PMC Article

See all (45) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Our study demonstrates that up-regulated NID2 plays an important role in promoting the invasion and migration of gastric cancer cells and has a potential of being a novel biomarker for diagnosis, treatment and prognosis of gastric cancer in the future.
    Title: NID2 can serve as a potential prognosis prediction biomarker and promotes the invasion and migration of gastric cancer.
  2. Our results indicated that NID2, COL4A1 and COL4A2 could be the potential novel biomarkers for gastric cancer diagnosis prognosis and the promising therapeutic targets
    Title: Integrated bioinformatics analysis reveals novel key biomarkers and potential candidate small molecule drugs in gastric cancer.
  3. High NID2 methylation is associated with non-small cell lung cancer.
    Title: The more potential performance of nidogen 2 methylation by tissue or plasma DNA over brichoalveolar lavage DNA in diagnosis of nonsmall cell lung cancer.
  4. the serum NID2 levels show significant elevation in the ESCC patients and those with relatively high serum NID2 levels ( 32.6 mu mu g/L) are significantly associated with poor survival outcome compared with those with very low serum NID2 levels (< < 20.0 mu mu g/L).
    Title: Elevated levels of serum nidogen-2 in esophageal squamous cell carcinoma.
  5. Addition of a TWIST1/NID2-based DNA methylation assay adds diagnostic value to urine cytology and the model is sensitive to the classification of equivocal cytology.
    Title: Urinary NID2 and TWIST1 methylation to augment conventional urine cytology for the detection of bladder cancer.
  6. Promoter methylation of NID2 was significantly higher in nasopharyngeal carcinoma and esophageal squamous cell carcinoma cells. NID2 suppresses the EGFR/Akt and integrin/FAK/PLCgamma metastasis-related pathways.
    Title: Metastasis-suppressing NID2, an epigenetically-silenced gene, in the pathogenesis of nasopharyngeal carcinoma and esophageal squamous cell carcinoma.
  7. Knockdown of nidogen-2 reduced SOX9 expression, whereas it up-regulated RUNX2 expression
    Title: Laminins and Nidogens in the Pericellular Matrix of Chondrocytes: Their Role in Osteoarthritis and Chondrogenic Differentiation.
  8. The cleavage of nidogen-1 and -2 is partially inhibited in human tumor samples.
    Title: Contribution of ADAMTS1 as a tumor suppressor gene in human breast carcinoma. Linking its tumor inhibitory properties to its proteolytic activity on nidogen-1 and nidogen-2.
  9. combined methylation analysis of Twist homolog 1 and nidogen-2 genes may be a simple, noninvasive, sensitive, and specific method for detecting cancer cells in urine.
    Title: Hypermethylation of TWIST1 and NID2 in tumor tissues and voided urine in urinary bladder cancer patients.
  10. Decreased nidogen-2 expression is associated with hepatocellular carcinoma
    Title: Clinical significance of decreased nidogen-2 expression in the tumor tissue and serum of patients with hepatocellular carcinoma.
Submit: New GeneRIF Correction See all GeneRIFs (17)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

NHGRI GWAS Catalog

Description
A genome-wide gene-environment interaction analysis for tobacco smoke and lung cancer susceptibility.
NHGRI GWA Catalog
Framingham Heart Study genome-wide association: results for pulmonary function measures.
NHGRI GWA Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
collagen binding TAS
Traceable Author Statement
more info
 PubMed 
extracellular matrix structural constituent RCA
inferred from Reviewed Computational Analysis
more info
 PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
basement membrane organization TAS
Traceable Author Statement
more info
 PubMed 
cell adhesion TAS
Traceable Author Statement
more info
 PubMed 
cell-matrix adhesion IEA
Inferred from Electronic Annotation
more info
  
extracellular matrix organization TAS
Traceable Author Statement
more info
  
Component Evidence Code Pubs
basement membrane IDA
Inferred from Direct Assay
more info
 PubMed 
collagen-containing extracellular matrix HDA PubMed 
colocalizes_with collagen-containing extracellular matrix HDA PubMed 
extracellular exosome HDA PubMed 
extracellular region TAS
Traceable Author Statement
more info
  
plasma membrane IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
nidogen-2
Names
osteonidogen

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_007361.4 → NP_031387.3  nidogen-2 precursor

    See identical proteins and their annotated locations for NP_031387.3

    Status: REVIEWED

    Source sequence(s)
    AJ223500, AL118557, BM719690, CA413165
    Consensus CDS
    CCDS9706.1
    UniProtKB/Swiss-Prot
    Q14112
    Related
    ENSP00000216286.4, ENST00000216286.10
    Conserved Domains (6) summary
    smart00135
    Location:1221 → 1265
    LY; Low-density lipoprotein-receptor YWTD domain
    smart00179
    Location:801 → 843
    EGF_CA; Calcium-binding EGF-like domain
    smart00539
    Location:108 → 273
    NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
    smart00682
    Location:525 → 757
    G2F; G2 nidogen domain and fibulin
    cd00191
    Location:939 → 1005
    TY; Thyroglobulin type I repeats.; The N-terminal region of human thyroglobulin contains 11 type-1 repeats TY repeats are proposed to be inhibitors of cysteine proteases
    pfam12947
    Location:896 → 929
    EGF_3; EGF domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000014.9 Reference GRCh38.p13 Primary Assembly

    Range
    52004809..52069059 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005267407.5 → XP_005267464.1  nidogen-2 isoform X3

    Conserved Domains (6) summary
    smart00135
    Location:1173 → 1217
    LY; Low-density lipoprotein-receptor YWTD domain
    smart00179
    Location:801 → 843
    EGF_CA; Calcium-binding EGF-like domain
    smart00539
    Location:108 → 273
    NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
    smart00682
    Location:525 → 757
    G2F; G2 nidogen domain and fibulin
    cd00191
    Location:891 → 957
    TY; Thyroglobulin type I repeats.; The N-terminal region of human thyroglobulin contains 11 type-1 repeats TY repeats are proposed to be inhibitors of cysteine proteases
    pfam12947
    Location:848 → 881
    EGF_3; EGF domain

  2. XM_005267406.5 → XP_005267463.1  nidogen-2 isoform X2

    Conserved Domains (6) summary
    smart00135
    Location:1200 → 1244
    LY; Low-density lipoprotein-receptor YWTD domain
    smart00179
    Location:828 → 870
    EGF_CA; Calcium-binding EGF-like domain
    smart00539
    Location:108 → 273
    NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
    smart00682
    Location:552 → 784
    G2F; G2 nidogen domain and fibulin
    cd00191
    Location:918 → 984
    TY; Thyroglobulin type I repeats.; The N-terminal region of human thyroglobulin contains 11 type-1 repeats TY repeats are proposed to be inhibitors of cysteine proteases
    pfam12947
    Location:875 → 908
    EGF_3; EGF domain

  3. XM_005267405.5 → XP_005267462.1  nidogen-2 isoform X1

    Conserved Domains (6) summary
    smart00135
    Location:1248 → 1292
    LY; Low-density lipoprotein-receptor YWTD domain
    smart00179
    Location:828 → 870
    EGF_CA; Calcium-binding EGF-like domain
    smart00539
    Location:108 → 273
    NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
    smart00682
    Location:552 → 784
    G2F; G2 nidogen domain and fibulin
    cd00191
    Location:966 → 1032
    TY; Thyroglobulin type I repeats.; The N-terminal region of human thyroglobulin contains 11 type-1 repeats TY repeats are proposed to be inhibitors of cysteine proteases
    pfam12947
    Location:923 → 956
    EGF_3; EGF domain
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q14112.3 GenPept UniProtKB/Swiss-Prot:Q14112

Gene LinkOut

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