Nlrp4d (NLR family, pyrin domain containing 4D) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Nlrp4d (NLR family, pyrin domain containing 4D) Mus musculus
Analyze
Symbol: Nlrp4d
Name: NLR family, pyrin domain containing 4D
RGD ID: 1614002
MGI Page MGI
Description:
Type: pseudo (Ensembl: unprocessed_pseudogene)
RefSeq Status: INFERRED
Previously known as: Na; NACHT, leucine rich repeat and PYD containing 4D; Nalp; NALP, beta; Nalp-beta; Nalp4d
Related Functional Gene: Nlrp4a  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39710,091,688 - 10,122,919 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl710,092,800 - 10,122,862 (-)EnsemblGRCm39 Ensembl
GRCm38710,364,111 - 10,388,992 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl710,358,873 - 10,388,935 (-)EnsemblGRCm38mm10GRCm38
MGSCv37710,944,190 - 10,974,284 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3679,237,705 - 9,263,828 (-)NCBIMGSCv36mm8
Celera77,623,776 - 7,654,118 (+)NCBICelera
Cytogenetic Map7A1NCBI
cM Map76.39NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15317747  


Genomics

Variants

.
Variants in Nlrp4d
1370 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:171
Count of miRNA genes:83
Interacting mature miRNAs:85
Transcripts:ENSMUST00000086269, ENSMUST00000182420, ENSMUST00000184509
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300722Sle3_msystemic lupus erythmatosus susceptibility 3 (mouse)Not determined7351172887142720Mouse
25314307Mlh1fc2_mMLH1 foci count 2 (mouse)76502999133501729Mouse
38501068Tip1_mtuberculosis immunophenotype 1, spleen CFU (mouse)7360299972549748Mouse
1301115Lrdm1_mlymphoproliferation (Fas) renal disease modifier 1 (mouse)Not determined7335204824879418Mouse
12904941Edlmmq6_mextensor digitorum longus muscle mass QTL 6 (mouse)7121821047Mouse
1301177Vent3_mventricular size 3 (mouse)Not determined7120511925Mouse
10054067Sle20_msystematic lupus erythematosus susceptibility 20 (mouse)Not determined7120511925Mouse
25394569Skmw57_mskeletal muscle weight 57, gastroc (mouse)7458046916687861Mouse
12904948Tammq5_mtibialis anterior muscle mass QTL 5 (mouse)7121821047Mouse
1302115Abhr3_mallergen-induced bronchial hyperresponsiveness 3 (mouse)Not determined7331599616637423Mouse
12792978Fbmd3_mfemoral bone mineral density 3, females only (mouse)77050288142367832Mouse
1301572Sluc30_msusceptibility to lung cancer 30 (mouse)Not determined7243169636431844Mouse
1357699Nhdlq6_mnon-HDL QTL 6 (mouse)Not determined7998886743988984Mouse
12904953Gmmq5_mgastrocnemius muscle mass QTL 5 (mouse)7121821047Mouse
1302188Lxw6_mlupus BXSB x NZW 6 (mouse)Not determined7121698146Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000182420
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl710,092,800 - 10,122,862 (-)Ensembl
GRCm38.p6 Ensembl710,358,873 - 10,388,935 (-)Ensembl
RefSeq Acc Id: XM_017312461   ⟹   XP_017167950
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38710,358,841 - 10,388,935 (-)NCBI
Sequence:
Protein Sequences
GenBank Protein AAU06316 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_017167950   ⟸   XM_017312461
- Sequence:
Protein Domains
NACHT   Pyrin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000034122 Ensembl, ENTREZGENE
Gene3D-CATH 1.10.533.10 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
InterPro DEATH-like UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
  NACHT_NTPase UniProtKB/TrEMBL
  NLRP_HD2 UniProtKB/TrEMBL
  NLRP_innate_immun_reg UniProtKB/TrEMBL
  NOD2_WH UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  Pyrin UniProtKB/TrEMBL
MGD MGI:3056574 ENTREZGENE
NCBI Gene 384752 ENTREZGENE
PANTHER NACHT, LRR AND PYD DOMAINS-CONTAINING PROTEIN 12 UniProtKB/TrEMBL
  NACHT, LRR AND PYD DOMAINS-CONTAINING PROTEIN 4 UniProtKB/TrEMBL
Pfam LRR_6 UniProtKB/TrEMBL
  NACHT UniProtKB/TrEMBL
  NLRC4_HD2 UniProtKB/TrEMBL
  NOD2_WH UniProtKB/TrEMBL
  PAAD_DAPIN UniProtKB/TrEMBL
PhenoGen Nlrp4d PhenoGen
PROSITE DAPIN UniProtKB/TrEMBL
  NACHT UniProtKB/TrEMBL
SMART LRR_RI UniProtKB/TrEMBL
  PYRIN UniProtKB/TrEMBL
Superfamily-SCOP DEATH_like UniProtKB/TrEMBL
  RNI-like UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt Q66X24_MOUSE UniProtKB/TrEMBL