Defa10 (defensin alpha 10) - Rat Genome Database

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Gene: Defa10 (defensin alpha 10) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Defa10
Name: defensin alpha 10
RGD ID: 1587187
Description: Predicted to be involved in cellular response to lipopolysaccharide; defense response to other organism; and membrane disruption in another organism. Predicted to act upstream of or within defense response to bacterium and response to xenobiotic stimulus. Predicted to be active in extracellular space. Orthologous to several human genes including DEFA5 (defensin alpha 5).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: alpha-defensin 10
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
NCBI Annotation Information: Note: Genetic polymorphisms result in both protein coding and non-coding alleles of this gene.
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21670,514,248 - 70,515,024 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1670,514,248 - 70,515,024 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1675,791,094 - 75,791,870 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01679,236,588 - 79,237,364 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01674,486,029 - 74,486,805 (-)NCBIRnor_WKY
Rnor_6.01675,498,236 - 75,499,012 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1675,498,236 - 75,499,012 (-)EnsemblRnor6.0rn6Rnor6.0
RGSC_v3.41675,304,740 - 75,305,516 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1668,375,978 - 68,376,754 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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:7927786   PMID:11248802   PMID:12860195   PMID:16502470   PMID:17088326   PMID:17635867   PMID:19199708   PMID:20551380   PMID:21861873   PMID:23533145   PMID:27559042  


Genomics

Variants

.
Variants in Defa10
5 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat
1298527Arunc2Aerobic running capacity QTL 22.9exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)166853271675029966Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system exocrine system hemolymphoid system hepatobiliary system reproductive system
High
Medium
Low 8 8 1 8
Below cutoff 8 8 1 8 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000058039   ⟹   ENSRNOP00000054848
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1670,514,248 - 70,515,024 (-)Ensembl
Rnor_6.0 Ensembl1675,498,236 - 75,499,012 (-)Ensembl
RefSeq Acc Id: NM_001033074   ⟹   NP_001028246
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21670,514,248 - 70,515,024 (-)NCBI
Rnor_6.01675,498,236 - 75,499,012 (-)NCBI
RGSC_v3.41675,304,740 - 75,305,516 (-)RGD
Celera1668,375,978 - 68,376,754 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001028246 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAT68753 (Get FASTA)   NCBI Sequence Viewer  
  AAT68761 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001028246   ⟸   NM_001033074
- Peptide Label: precursor
- UniProtKB: Q4JEI4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000054848   ⟸   ENSRNOT00000058039
Protein Domains
DEFSN

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LSU5-F1-model_v2 AlphaFold F1LSU5 1-90 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:1587187 AgrOrtholog
BioCyc Gene G2FUF-10827 BioCyc
Ensembl Genes ENSRNOG00000061751 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000054848.4 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000058039.4 UniProtKB/TrEMBL
InterPro Alpha-defensin UniProtKB/TrEMBL
  Defensin_beta/neutrophil UniProtKB/TrEMBL
  Defensin_propep UniProtKB/TrEMBL
  Mammalian_defensins UniProtKB/TrEMBL
KEGG Report rno:613221 UniProtKB/TrEMBL
NCBI Gene 613221 ENTREZGENE
PANTHER PTHR11876 UniProtKB/TrEMBL
Pfam Defensin_1 UniProtKB/TrEMBL
  Defensin_propep UniProtKB/TrEMBL
PhenoGen Defa10 PhenoGen
PIRSF Alpha-defensin UniProtKB/TrEMBL
SMART DEFSN UniProtKB/TrEMBL
UniProt F1LSU5_RAT UniProtKB/TrEMBL
  Q4JEI4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-11-19 Defa10  defensin alpha 10      Symbol and Name status set to provisional 70820 PROVISIONAL