Defb18 (defensin beta 18) - Rat Genome Database

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Gene: Defb18 (defensin beta 18) Rattus norvegicus
Analyze
Symbol: Defb18
Name: defensin beta 18
RGD ID: 1559758
Description: Predicted to be involved in defense response to bacterium and innate immune response. Predicted to be located in extracellular region. Orthologous to human DEFB113 (defensin beta 113); INTERACTS WITH bisphenol A; indole-3-methanol; N-acetyl-L-cysteine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: BD-18; beta-defensin 18; defensin, beta 18
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8928,348,776 - 28,349,793 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl928,348,776 - 28,349,793 (-)EnsemblGRCr8
mRatBN7.2920,852,230 - 20,853,247 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,852,300 - 20,853,211 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx929,382,664 - 29,383,575 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0934,499,190 - 34,500,101 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0932,809,999 - 32,810,910 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0924,466,981 - 24,467,892 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl924,466,981 - 24,467,892 (-)Ensemblrn6Rnor6.0
Rnor_5.0923,329,459 - 23,330,370 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4917,086,127 - 17,087,038 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera918,489,409 - 18,490,320 (-)NCBICelera
Cytogenetic Map9q13NCBI
JBrowse:




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

Biological Process

Cellular Component

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:16033865  


Genomics

Comparative Map Data
Defb18
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8928,348,776 - 28,349,793 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl928,348,776 - 28,349,793 (-)EnsemblGRCr8
mRatBN7.2920,852,230 - 20,853,247 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,852,300 - 20,853,211 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx929,382,664 - 29,383,575 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0934,499,190 - 34,500,101 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0932,809,999 - 32,810,910 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0924,466,981 - 24,467,892 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl924,466,981 - 24,467,892 (-)Ensemblrn6Rnor6.0
Rnor_5.0923,329,459 - 23,330,370 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4917,086,127 - 17,087,038 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera918,489,409 - 18,490,320 (-)NCBICelera
Cytogenetic Map9q13NCBI
DEFB113
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38649,968,677 - 49,969,625 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl649,968,677 - 49,969,625 (-)Ensemblhg38GRCh38
GRCh37649,936,390 - 49,937,338 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36650,044,349 - 50,045,297 (-)NCBIBuild 36Build 36hg18NCBI36
Celera651,492,462 - 51,493,410 (-)NCBICelera
Cytogenetic Map6p12.3NCBI
HuRef649,667,884 - 49,668,832 (-)NCBIHuRef
CHM1_1649,939,142 - 49,940,090 (-)NCBICHM1_1
T2T-CHM13v2.0649,811,571 - 49,812,519 (-)NCBIT2T-CHM13v2.0
Defb18
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39118,306,626 - 18,307,700 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl118,306,697 - 18,307,667 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38118,236,402 - 18,237,476 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl118,236,473 - 18,237,443 (-)Ensemblmm10GRCm38
MGSCv37118,226,554 - 18,227,524 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36118,221,687 - 18,222,657 (-)NCBIMGSCv36mm8
Celera118,139,540 - 18,140,510 (-)NCBICelera
Cytogenetic Map1A3NCBI
cM Map15.7NCBI
DEFB113
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2564,449,834 - 64,450,782 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1660,315,637 - 60,316,585 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0649,535,970 - 49,536,918 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1650,795,583 - 50,796,531 (-)NCBIPanPan1.1PanPan1.1panPan2
DEFB113
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11217,791,239 - 17,792,527 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1217,791,239 - 17,792,185 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1217,687,159 - 17,688,447 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01218,285,606 - 18,286,894 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1218,285,606 - 18,286,551 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11217,797,457 - 17,798,745 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01217,903,362 - 17,904,643 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01218,033,720 - 18,035,008 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Defb113
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494653,330,360 - 53,331,437 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493647610,628,765 - 10,629,842 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DEFB113
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl743,999,267 - 44,000,238 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1743,999,119 - 44,000,402 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
DEFB113
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1722,443,252 - 22,444,198 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604449,936,406 - 49,937,355 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Defb113
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1495,986,223 - 95,987,133 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Defb18
25 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:14
Count of miRNA genes:14
Interacting mature miRNAs:14
Transcripts:ENSRNOT00000060803
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
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)9671488884474983Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9534647950346479Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9875049253750492Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)9131250552Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)949664545496645Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9621499551214995Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9875049253750492Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9141763315Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9534647950416711Rat
631643Bp120Blood pressure QTL 12030.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9671488829567695Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)949664545496645Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)92103143049025574Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)949664545496645Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9621499551214995Rat


Expression

RNA-SEQ Expression

appendage
ectoderm
endocrine system
mesenchyme
mesoderm
reproductive system
1 1 1 2 1 7

Sequence


Ensembl Acc Id: ENSRNOT00000060803   ⟹   ENSRNOP00000057530
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl928,348,776 - 28,349,793 (-)Ensembl
mRatBN7.2 Ensembl920,852,300 - 20,853,211 (-)Ensembl
Rnor_6.0 Ensembl924,466,981 - 24,467,892 (-)Ensembl
RefSeq Acc Id: NM_001037530   ⟹   NP_001032619
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8928,348,776 - 28,349,793 (-)NCBI
mRatBN7.2920,852,230 - 20,853,247 (-)NCBI
Rnor_6.0924,466,981 - 24,467,892 (-)NCBI
Rnor_5.0923,329,459 - 23,330,370 (-)NCBI
RGSC_v3.4917,086,127 - 17,087,038 (-)RGD
Celera918,489,409 - 18,490,320 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001032619 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAT51888 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000057530
  ENSRNOP00000057530.1
GenBank Protein Q32ZH4 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001032619   ⟸   NM_001037530
- Peptide Label: precursor
- UniProtKB: Q32ZH4 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000057530   ⟸   ENSRNOT00000060803

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q32ZH4-F1-model_v2 AlphaFold Q32ZH4 1-85 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:1559758 AgrOrtholog
BioCyc Gene G2FUF-28058 BioCyc
Ensembl Genes ENSRNOG00000039650 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000060803 ENTREZGENE
  ENSRNOT00000060803.2 UniProtKB/Swiss-Prot
InterPro Beta_defensin UniProtKB/Swiss-Prot
KEGG Report rno:641655 UniProtKB/Swiss-Prot
NCBI Gene 641655 ENTREZGENE
PANTHER BETA-DEFENSIN 113 UniProtKB/Swiss-Prot
  BETA-DEFENSIN 113 UniProtKB/Swiss-Prot
Pfam Defensin_beta_2 UniProtKB/Swiss-Prot
PhenoGen Defb18 PhenoGen
RatGTEx ENSRNOG00000039650 RatGTEx
UniProt DFB18_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-11-07 Defb18  defensin beta 18    beta-defensin 18  Name updated 1299863 APPROVED
2006-02-09 Defb18  beta-defensin 18      Symbol and Name status set to provisional 70820 PROVISIONAL