Defb105b (defensin beta 105B) - Rat Genome Database

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Gene: Defb105b (defensin beta 105B) Rattus norvegicus
Analyze
Symbol: Defb105b (Ensembl: Defb12)
Name: defensin beta 105B (Ensembl:defensin beta 12)
RGD ID: 1564879
Description: Predicted to be involved in defense response to bacterium and innate immune response. Predicted to be located in extracellular region. Orthologous to several human genes including DEFB105B (defensin beta 105B); INTERACTS WITH aflatoxin B1 (ortholog); propanal (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: BD-12; beta-defensin 12; beta-defensin 12-like; Defb12; defensin beta 12; defensin, beta 12
RGD Orthologs
Human
Pig
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81677,428,110 - 77,431,282 (+)NCBIGRCr8
mRatBN7.21670,725,687 - 70,728,859 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1670,136,218 - 70,138,633 (-)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl1670,725,701 - 70,728,143 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1675,409,907 - 75,412,322 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01678,872,772 - 78,875,216 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01674,122,186 - 74,124,630 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01675,118,002 - 75,120,417 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1675,118,002 - 75,120,417 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01674,737,487 - 74,739,902 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41674,813,231 - 74,815,646 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1668,590,526 - 68,592,947 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
aflatoxin B1  (ISO)
propanal  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16033865  


Genomics

Comparative Map Data
Defb105b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81677,428,110 - 77,431,282 (+)NCBIGRCr8
mRatBN7.21670,725,687 - 70,728,859 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1670,136,218 - 70,138,633 (-)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl1670,725,701 - 70,728,143 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1675,409,907 - 75,412,322 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01678,872,772 - 78,875,216 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01674,122,186 - 74,124,630 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01675,118,002 - 75,120,417 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1675,118,002 - 75,120,417 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01674,737,487 - 74,739,902 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41674,813,231 - 74,815,646 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1668,590,526 - 68,592,947 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
DEFB105B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3887,487,679 - 7,489,593 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl87,487,679 - 7,489,593 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl87,821,004 - 7,823,880 (-)EnsemblGRCh38hg38GRCh38
GRCh3787,345,201 - 7,347,115 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3687,332,653 - 7,334,483 (+)NCBINCBI36Build 36hg18NCBI36
Cytogenetic Map8p23.1NCBI
HuRef86,962,782 - 6,964,605 (-)NCBIHuRef
CHM1_187,280,720 - 7,282,550 (-)NCBICHM1_1
T2T-CHM13v2.087,216,697 - 7,218,608 (+)NCBIT2T-CHM13v2.0
LOC106506206
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11537,982,133 - 37,989,094 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21543,180,220 - 43,183,297 (-)NCBISscrofa10.2Sscrofa10.2susScr3

Variants

.
Variants in Defb105b
77 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:93
Count of miRNA genes:86
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000044094
Prediction methods:Microtar, 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 (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

nervous system renal system reproductive system
High
Medium
Low 29 8
Below cutoff 1 4 9

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000044094   ⟹   ENSRNOP00000045210
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1670,136,218 - 70,138,633 (-)Ensembl
Rnor_6.0 Ensembl1675,118,002 - 75,120,417 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106638   ⟹   ENSRNOP00000083375
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1670,725,701 - 70,728,143 (+)Ensembl
RefSeq Acc Id: NM_001037514   ⟹   NP_001032603
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81677,428,110 - 77,431,282 (+)NCBI
mRatBN7.21670,725,687 - 70,728,859 (+)NCBI
Rnor_6.01675,118,002 - 75,120,417 (-)NCBI
Rnor_5.01674,737,487 - 74,739,902 (-)NCBI
RGSC_v3.41674,813,231 - 74,815,646 (-)RGD
Celera1668,590,526 - 68,592,947 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001032603 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAT51883 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000045210.3
  ENSRNOP00000083375
  ENSRNOP00000083375.1
  ENSRNOP00055011007
  ENSRNOP00060026754
  ENSRNOP00060033975
  ENSRNOP00065009805
Reference Protein Sequences
RefSeq Acc Id: NP_001032603   ⟸   NM_001037514
- Peptide Label: precursor
- UniProtKB: Q32ZH9 (UniProtKB/Swiss-Prot),   A0A8I5ZVS0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000045210   ⟸   ENSRNOT00000044094
RefSeq Acc Id: ENSRNOP00000083375   ⟸   ENSRNOT00000106638
Protein Domains
Beta-defensin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q32ZH9-F1-model_v2 AlphaFold Q32ZH9 1-78 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:1564879 AgrOrtholog
BioCyc Gene G2FUF-10815 BioCyc
Ensembl Genes ENSRNOG00000038155 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00000065258 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00055008103 UniProtKB/Swiss-Prot
  ENSRNOG00060018952 UniProtKB/Swiss-Prot
  ENSRNOG00060023719 UniProtKB/Swiss-Prot
  ENSRNOG00065008342 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000044094.4 UniProtKB/Swiss-Prot
  ENSRNOT00000106638 ENTREZGENE
  ENSRNOT00000106638.1 UniProtKB/TrEMBL
  ENSRNOT00055013707 UniProtKB/Swiss-Prot
  ENSRNOT00060032752 UniProtKB/Swiss-Prot
  ENSRNOT00060041046 UniProtKB/Swiss-Prot
  ENSRNOT00065013238 UniProtKB/Swiss-Prot
InterPro Beta_defensin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:641643 UniProtKB/Swiss-Prot
NCBI Gene 641643 ENTREZGENE
Pfam Defensin_beta_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Defb105b PhenoGen
RatGTEx ENSRNOG00000038155 RatGTEx
  ENSRNOG00000065258 RatGTEx
  ENSRNOG00055008103 RatGTEx
  ENSRNOG00060018952 RatGTEx
  ENSRNOG00060023719 RatGTEx
  ENSRNOG00065008342 RatGTEx
UniProt A0A8I5ZVS0 ENTREZGENE, UniProtKB/TrEMBL
  DFB12_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-10-13 Defb105b  defensin beta 105B  Defb12  defensin beta 12  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-05-24 Defb12  defensin beta 12  LOC100362695  beta-defensin 12-like  Data merged from RGD:2324263 1643240 APPROVED
2010-05-06 LOC100362695  beta-defensin 12-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-07 Defb12  defensin beta 12    beta-defensin 12  Name updated 1299863 APPROVED
2006-02-09 Defb12  beta-defensin 12      Symbol and Name status set to provisional 70820 PROVISIONAL