Defb34 (defensin beta 34) - Rat Genome Database

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Gene: Defb34 (defensin beta 34) Mus musculus
Analyze
Symbol: Defb34
Name: defensin beta 34
RGD ID: 1622827
MGI Page MGI
Description: Predicted to enable CCR2 chemokine receptor binding activity; heparin binding activity; and lipopolysaccharide binding activity. Predicted to be involved in innate immune response. Predicted to act upstream of or within defense response to bacterium. Predicted to be located in membrane; microvesicle; and nucleus. Orthologous to human DEFB106A (defensin beta 106A) and DEFB106B (defensin beta 106B).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: BD-34; beta-defensin 34; defensin, beta 34; mBD-34
RGD Orthologs
Human
Rat
Bonobo
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39819,173,744 - 19,176,556 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl819,173,768 - 19,176,556 (+)EnsemblGRCm39 Ensembl
GRCm38819,123,728 - 19,126,540 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl819,123,752 - 19,126,540 (+)EnsemblGRCm38mm10GRCm38
MGSCv37819,123,752 - 19,126,540 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36819,123,729 - 19,126,517 (+)NCBIMGSCv36mm8
Celera819,253,789 - 19,256,578 (+)NCBICelera
Cytogenetic Map8A1.3NCBI
cM Map810.35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
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:14718547   PMID:20003482  


Genomics

Comparative Map Data
Defb34
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39819,173,744 - 19,176,556 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl819,173,768 - 19,176,556 (+)EnsemblGRCm39 Ensembl
GRCm38819,123,728 - 19,126,540 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl819,123,752 - 19,126,540 (+)EnsemblGRCm38mm10GRCm38
MGSCv37819,123,752 - 19,126,540 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36819,123,729 - 19,126,517 (+)NCBIMGSCv36mm8
Celera819,253,789 - 19,256,578 (+)NCBICelera
Cytogenetic Map8A1.3NCBI
cM Map810.35NCBI
DEFB106A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3887,825,139 - 7,829,053 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl87,825,139 - 7,829,053 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl87,482,504 - 7,486,400 (-)EnsemblGRCh38hg38GRCh38
GRCh3787,682,661 - 7,686,575 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3687,720,104 - 7,723,985 (+)NCBINCBI36Build 36hg18NCBI36
Build 3487,720,103 - 7,723,985NCBI
Cytogenetic Map8p23.1NCBI
CHM1_187,747,961 - 7,751,649 (+)NCBICHM1_1
T2T-CHM13v2.0811,971,108 - 11,975,062 (+)NCBIT2T-CHM13v2.0
Defb34
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81677,422,703 - 77,425,557 (-)NCBIGRCr8
mRatBN7.21670,720,200 - 70,723,134 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1670,720,500 - 70,723,098 (-)EnsemblmRatBN7.2 Ensembl
Cytogenetic Map16q12.5NCBI
LOC117981347
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2730,325,539 - 30,329,109 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan186,104,721 - 6,108,373 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0811,129,250 - 11,132,957 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3

Variants

.
Variants in Defb34
9 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:89
Count of miRNA genes:87
Interacting mature miRNAs:88
Transcripts:ENSMUST00000064475
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
13432571Scvg1_msubcutaneous vessel growth QTL 1 (mouse)8124751082Mouse
11533914Mts5_mmammary tumor susceptibility 5 (mouse)8130447432Mouse
4140978Nilac5_mnicotine induced locomotor activity 5 (mouse)Not determined8131773288Mouse
27226756Femd2_mfemur midshaft diameter 2, 5 week (mouse)8495000035067154Mouse
1357525Pnhdlc3_mplasma non-HDL cholesterol 3 (mouse)Not determined8721249923753815Mouse
1301532Scc8_mcolon tumor susceptibility 8 (mouse)Not determined8721249935110107Mouse
1300906Ap8q_malcohol preference 8 QTL (mouse)Not determined8798418941984342Mouse
10412209Cypr7_mcytokine production 7 (mouse)Not determined8810320142103372Mouse
1301929Eae24_msusceptibility to experimental allergic encephalomyelitis 24 (mouse)Not determined8810320142103372Mouse
1301128Sluc20_msusceptibility to lung cancer 20 (mouse)Not determined8810320142103372Mouse
11532713Sluc42_msusceptibility to lung cancer 42 (mouse)81344721035321225Mouse
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81477316071498244Mouse
1301088Alcw6_malcohol withdrawal 6 (mouse)Not determined81550657249506729Mouse
1300912Daq19_mdirectional asymmetry QTL 19 (mouse)Not determined81550657249506729Mouse
1301298Pgia4_mproteoglycan induced arthritis 4 (mouse)Not determined81656937350569697Mouse
4142199Poats1_mpost-ovarectomy adrenal tumor susceptibility 1 (mouse)Not determined1708262628849467Mouse
1301550Fembrs2_mfemur breaking strength 2 (mouse)Not determined81832109752321225Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000064475   ⟹   ENSMUSP00000064554
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl819,173,768 - 19,176,556 (+)Ensembl
GRCm38.p6 Ensembl819,123,752 - 19,126,540 (+)Ensembl
RefSeq Acc Id: NM_183035   ⟹   NP_898856
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39819,173,768 - 19,176,556 (+)NCBI
GRCm38819,123,752 - 19,126,540 (+)NCBI
MGSCv37819,123,752 - 19,126,540 (+)RGD
Celera819,253,789 - 19,256,578 (+)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_017312869   ⟹   XP_017168358
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39819,173,744 - 19,176,556 (+)NCBI
GRCm38819,123,728 - 19,126,540 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_898856 (Get FASTA)   NCBI Sequence Viewer  
  XP_017168358 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAE17666 (Get FASTA)   NCBI Sequence Viewer  
  EDL22228 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000064554
  ENSMUSP00000064554.4
GenBank Protein Q7TNV8 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_898856   ⟸   NM_183035
- Peptide Label: precursor
- UniProtKB: Q7TNV8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017168358   ⟸   XM_017312869
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSMUSP00000064554   ⟸   ENSMUST00000064475

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q7TNV8-F1-model_v2 AlphaFold Q7TNV8 1-81 view protein structure

Promoters
RGD ID:8666569
Promoter ID:EPDNEW_M11316
Type:multiple initiation site
Name:Defb34_1
Description:Mus musculus defensin beta 34 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38819,123,715 - 19,123,775EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2672979 AgrOrtholog
Ensembl Genes ENSMUSG00000052554 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000064475 ENTREZGENE
  ENSMUST00000064475.4 UniProtKB/Swiss-Prot
InterPro Beta_defensin UniProtKB/Swiss-Prot
KEGG Report mmu:360211 UniProtKB/Swiss-Prot
MGD MGI:2672979 ENTREZGENE
NCBI Gene 360211 ENTREZGENE
Pfam Defensin_beta_2 UniProtKB/Swiss-Prot
PhenoGen Defb34 PhenoGen
UniProt DFB34_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE