Defb10 (defensin beta 10) - Rat Genome Database

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Gene: Defb10 (defensin beta 10) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Defb10
Name: defensin beta 10
RGD ID: 1562518
Description: Predicted to enable CCR6 chemokine receptor binding activity. Predicted to be involved in defense response to Gram-negative bacterium; defense response to Gram-positive bacterium; and innate immune response in mucosa. Predicted to be located in extracellular region. Predicted to be active in extracellular space; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: BD-10; beta-defensin 10; defensin, beta 10
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81676,905,070 - 76,915,205 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1676,905,070 - 76,915,205 (-)EnsemblGRCr8
mRatBN7.21670,202,599 - 70,212,734 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1670,202,655 - 70,212,707 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1675,476,351 - 75,486,403 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01678,938,322 - 78,948,360 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01674,187,754 - 74,197,790 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01675,198,178 - 75,208,230 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1675,198,178 - 75,208,230 (-)Ensemblrn6Rnor6.0
Rnor_5.01674,815,823 - 74,825,537 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41674,880,003 - 74,890,055 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1668,081,992 - 68,091,566 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse:




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

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16033865  


Genomics

Variants

.
Variants in Defb10
64 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:11
Count of miRNA genes:11
Interacting mature miRNAs:11
Transcripts:ENSRNOT00000058059
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)164445512389455123Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165942871491442908Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)163439829479398294Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)163692878281928782Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)164199206486992064Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)164445512389455123Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165942871491442908Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165942871491442908Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164909919691442908Rat
1298527Arunc2Aerobic running capacity QTL 22.9exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)167523528581732231Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)163236104377361043Rat


Expression

RNA-SEQ Expression

ectoderm
mesenchyme
nervous system
renal system
reproductive system
20 6 20 6 3

Sequence


Ensembl Acc Id: ENSRNOT00000058059   ⟹   ENSRNOP00000054867
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1676,905,070 - 76,915,205 (-)Ensembl
mRatBN7.2 Ensembl1670,202,655 - 70,212,707 (-)Ensembl
Rnor_6.0 Ensembl1675,198,178 - 75,208,230 (-)Ensembl
RefSeq Acc Id: NM_001037510   ⟹   NP_001032599
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81676,905,070 - 76,915,205 (-)NCBI
mRatBN7.21670,202,599 - 70,212,734 (-)NCBI
Rnor_6.01675,198,178 - 75,208,230 (-)NCBI
Rnor_5.01674,815,823 - 74,825,537 (-)NCBI
RGSC_v3.41674,880,003 - 74,890,055 (-)RGD
Celera1668,081,992 - 68,091,566 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001032599 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAT51881 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000054867
  ENSRNOP00000054867.1
GenBank Protein Q32ZI1 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001032599   ⟸   NM_001037510
- Peptide Label: precursor
- UniProtKB: Q32ZI1 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000054867   ⟸   ENSRNOT00000058059

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q32ZI1-F1-model_v2 AlphaFold Q32ZI1 1-71 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562518 AgrOrtholog
BioCyc Gene G2FUF-10842 BioCyc
Ensembl Genes ENSRNOG00000038148 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000058059 ENTREZGENE
  ENSRNOT00000058059.2 UniProtKB/Swiss-Prot
Gene3D-CATH Antimicrobial Peptide, Beta-defensin 2, Chain A UniProtKB/Swiss-Prot
InterPro Defensin_beta-typ UniProtKB/Swiss-Prot
KEGG Report rno:641635 UniProtKB/Swiss-Prot
NCBI Gene 641635 ENTREZGENE
PANTHER BETA-DEFENSIN 10-RELATED UniProtKB/Swiss-Prot
  BETA-DEFENSIN-RELATED UniProtKB/Swiss-Prot
Pfam Defensin_beta UniProtKB/Swiss-Prot
PhenoGen Defb10 PhenoGen
RatGTEx ENSRNOG00000038148 RatGTEx
Superfamily-SCOP Defensin-like UniProtKB/Swiss-Prot
UniProt DFB10_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-11-07 Defb10  defensin beta 10    beta-defensin 10  Name updated 1299863 APPROVED
2006-02-09 Defb10  beta-defensin 10      Symbol and Name status set to provisional 70820 PROVISIONAL