Defb1 (defensin beta 1) - Rat Genome Database

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Gene: Defb1 (defensin beta 1) Rattus norvegicus
Analyze
Symbol: Defb1
Name: defensin beta 1
RGD ID: 619943
Description: Predicted to enable CCR6 chemokine receptor binding activity; double-stranded DNA binding activity; and identical protein binding activity. Involved in response to testosterone. Predicted to be located in membrane; microvesicle; and sperm midpiece. Predicted to be active in extracellular space. Biomarker of obesity and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in asthma; chronic obstructive pulmonary disease; and lung disease. Orthologous to human DEFB1 (defensin beta 1); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,2',4,4'-Tetrabromodiphenyl ether.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: BD-1; beta-defensin 1; CDK4; defensin, beta 1; rBD-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81677,001,326 - 77,016,068 (-)NCBIGRCr8
mRatBN7.21670,298,862 - 70,313,604 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1670,298,863 - 70,313,604 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1675,572,581 - 75,587,323 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01679,025,581 - 79,040,295 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01674,275,011 - 74,289,718 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01675,294,385 - 75,309,127 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1675,294,376 - 75,309,176 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01674,908,901 - 74,923,643 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41674,980,054 - 74,995,445 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11674,980,319 - 74,995,710 (-)NCBI
Celera1668,171,373 - 68,186,246 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,1-dichloroethene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-chloropropane-1,2-diol  (EXP)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (EXP,ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
Azaspiracid  (ISO)
bazedoxifene  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzylpenicillin  (ISO)
beta-naphthoflavone  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP)
butanal  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlordecone  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (EXP,ISO)
dichloroacetic acid  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
erythromycin A  (ISO)
fenvalerate  (EXP)
fluoranthene  (ISO)
flurbiprofen  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
hydrogen peroxide  (ISO)
isoprenaline  (EXP)
ketamine  (EXP)
lasofoxifene  (ISO)
lipopolysaccharide  (EXP)
menadione  (ISO)
methimazole  (EXP)
monosodium L-glutamate  (ISO)
Muraglitazar  (EXP)
N-nitrosodiethylamine  (EXP)
O-methyleugenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenethyl isothiocyanate  (EXP)
phenobarbital  (ISO)
pirinixic acid  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
raloxifene  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
testosterone  (ISO)
tetrachloroethene  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
trichloroethene  (ISO)
Triptolide  (ISO)
troglitazone  (EXP,ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zoledronic acid  (ISO)

References

References - curated
# Reference Title Reference Citation
1. Beta-defensins and LL-37 in bronchoalveolar lavage fluid of patients with cystic fibrosis. Chen CI, etal., J Cyst Fibros. 2004 Mar;3(1):45-50.
2. A polymorphism in the 5' UTR of the DEFB1 gene is associated with the lung phenotype in F508del homozygous Italian cystic fibrosis patients. Crovella S, etal., Clin Chem Lab Med. 2011 Jan;49(1):49-54. Epub 2010 Nov 16.
3. Lipopolysaccharide induced-in vivo increases in beta-defensins of the rat parotid gland. Darnell M, etal., Arch Oral Biol. 2006 Sep;51(9):769-74. Epub 2006 May 15.
4. Differential effect of insulin treatment on decreased levels of beta-defensins and Toll-like receptors in diabetic rats. Froy O, etal., Mol Immunol. 2007 Feb;44(5):796-802. Epub 2006 Jun 5.
5. 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.
6. Nucleotide sequence and expression of rat beta-defensin-1: its significance in diabetic rodent models. Hiratsuka T, etal., Nephron. 2001 May;88(1):65-70.
7. Correlation of HDEFB1 polymorphism and susceptibility to chronic obstructive pulmonary disease in Chinese Han population. Hu RC, etal., Chin Med J (Engl). 2004 Nov;117(11):1637-41.
8. Molecular cloning and characterization of rat genes encoding homologues of human beta-defensins. Jia HP, etal., Infect Immun 1999 Sep;67(9):4827-33.
9. In vivo beta-defensin gene expression in rat gingival epithelium in response to Actinobacillus actinomycetemcomitans infection. Kurland AR, etal., J Periodontal Res. 2006 Dec;41(6):567-72.
10. Asthma and atopy are associated with DEFB1 polymorphisms in Chinese children. Leung TF, etal., Genes Immun. 2006 Jan;7(1):59-64.
11. Association of defensin beta-1 gene polymorphisms with asthma. Levy H, etal., J Allergy Clin Immunol. 2005 Feb;115(2):252-8.
12. Genetic variants of human beta-defensin-1 and chronic obstructive pulmonary disease. Matsushita I, etal., Biochem Biophys Res Commun 2002 Feb 15;291(1):17-22.
13. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
14. Elevated BALF concentrations of alpha- and beta-defensins in patients with pulmonary alveolar proteinosis. Mukae H, etal., Respir Med. 2007 Apr;101(4):715-21. Epub 2006 Sep 26.
15. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
16. Elevated levels of beta defensin-1 mRNA in diabetic kidneys of GK rats. Page RA and Malik AN, Biochem Biophys Res Commun. 2003 Oct 17;310(2):513-21.
17. Messenger RNA (mRNA) expression for the antimicrobial peptides beta-defensin-1 and beta-defensin-2 in the male rat reproductive tract: beta-defensin-1 mRNA in initial segment and caput epididymidis is regulated by androgens and not bacterial lipopolysaccharides. Palladino MA, etal., Biol Reprod. 2003 Feb;68(2):509-15.
18. GOA pipeline RGD automated data pipeline
19. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
20. Comprehensive gene review and curation RGD comprehensive gene curation
21. Increased levels of antimicrobial peptides in tracheal aspirates of newborn infants during infection. Schaller-Bals S, etal., Am J Respir Crit Care Med. 2002 Apr 1;165(7):992-5.
22. Analysis of DEFB1 regulatory SNPs in cystic fibrosis patients from North-Eastern Italy. Segat L, etal., Int J Immunogenet. 2010 Jun;37(3):169-75. Epub 2010 Feb 24.
23. Altered expression of antimicrobial molecules in cigarette smoke-exposed emphysematous mice lungs. Shibata Y, etal., Respirology. 2008 Nov;13(7):1061-5. Epub 2008 Aug 10.
24. Association of beta-defensin-1 gene polymorphisms with Pseudomonas aeruginosa airway colonization in cystic fibrosis. Tesse R, etal., Genes Immun. 2008 Jan;9(1):57-60. Epub 2007 Oct 25.
25. Distribution of human beta-defensin polymorphisms in various control and cystic fibrosis populations. Vankeerberghen A, etal., Genomics. 2005 May;85(5):574-81.
26. Contribution of alpha- and beta-defensins to lung function decline and infection in smokers: an association study. Wallace AM, etal., Respir Res. 2006 May 15;7:76.
Additional References at PubMed
PMID:7628632   PMID:9125149   PMID:12010999   PMID:12054642   PMID:12860195   PMID:19706017   PMID:21115716   PMID:23376485   PMID:23533145   PMID:23938203   PMID:25122636   PMID:31637753  


Genomics

Comparative Map Data
Defb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81677,001,326 - 77,016,068 (-)NCBIGRCr8
mRatBN7.21670,298,862 - 70,313,604 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1670,298,863 - 70,313,604 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1675,572,581 - 75,587,323 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01679,025,581 - 79,040,295 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01674,275,011 - 74,289,718 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01675,294,385 - 75,309,127 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1675,294,376 - 75,309,176 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01674,908,901 - 74,923,643 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41674,980,054 - 74,995,445 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11674,980,319 - 74,995,710 (-)NCBI
Celera1668,171,373 - 68,186,246 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
DEFB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3886,870,592 - 6,877,936 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl86,870,592 - 6,877,936 (-)EnsemblGRCh38hg38GRCh38
GRCh3786,728,114 - 6,735,458 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3686,715,507 - 6,722,939 (-)NCBINCBI36Build 36hg18NCBI36
Build 3486,715,510 - 6,722,939NCBI
Celera86,705,523 - 6,712,945 (-)NCBICelera
Cytogenetic Map8p23.1NCBI
HuRef86,508,241 - 6,515,671 (-)NCBIHuRef
CHM1_186,817,351 - 6,824,768 (-)NCBICHM1_1
T2T-CHM13v2.086,625,781 - 6,633,102 (-)NCBIT2T-CHM13v2.0
Defb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39822,266,571 - 22,285,201 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl822,266,615 - 22,285,201 (+)EnsemblGRCm39 Ensembl
GRCm38821,776,555 - 21,795,185 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl821,776,599 - 21,795,185 (+)EnsemblGRCm38mm10GRCm38
MGSCv37822,887,027 - 22,905,657 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36823,242,144 - 23,260,730 (+)NCBIMGSCv36mm8
Celera823,268,826 - 23,284,384 (+)NCBICelera
Cytogenetic Map8A2NCBI
cM Map810.35NCBI
LOC102004444
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540353,643,300 - 53,644,505 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540353,643,328 - 53,644,361 (+)NCBIChiLan1.0ChiLan1.0
DEFB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2721,673,949 - 21,682,991 (-)NCBINHGRI_mPanPan1-v2
Mhudiblu_PPA_v08403,268 - 410,712 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.186,874,235 - 6,881,631 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl86,874,235 - 6,881,631 (-)Ensemblpanpan1.1panPan2
DEFB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11658,871,018 - 58,881,592 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1658,871,018 - 58,881,592 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1654,396,123 - 54,406,697 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01657,167,155 - 57,177,835 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1657,167,155 - 57,177,835 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11659,031,889 - 59,042,480 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01655,175,446 - 55,186,038 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01655,550,404 - 55,561,006 (+)NCBIUU_Cfam_GSD_1.0
Defb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049434,780,229 - 4,790,578 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366154,780,229 - 4,790,516 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DEFB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa10.21543,346,359 - 43,356,953 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DEFB1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.186,643,753 - 6,652,209 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl86,643,556 - 6,651,699 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605448,759,956 - 48,767,679 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Defb1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248614,710,687 - 4,718,867 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Defb1
115 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:124
Count of miRNA genes:110
Interacting mature miRNAs:114
Transcripts:ENSRNOT00000018427
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

Markers in Region
D16Got75  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21670,308,796 - 70,308,993 (+)MAPPERmRatBN7.2
Rnor_6.01675,304,320 - 75,304,516NCBIRnor6.0
Rnor_5.01674,918,836 - 74,919,032UniSTSRnor5.0
RGSC_v3.41674,990,004 - 74,990,201RGDRGSC3.4
RGSC_v3.41674,990,005 - 74,990,201UniSTSRGSC3.4
RGSC_v3.11674,990,270 - 74,990,466RGD
Celera1668,181,437 - 68,181,635UniSTS
RH 3.4 Map16691.5UniSTS
RH 3.4 Map16691.5RGD
RH 2.0 Map16793.2RGD
Cytogenetic Map16pUniSTS
PMC96815P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21670,298,968 - 70,299,108 (+)MAPPERmRatBN7.2
Rnor_6.01675,294,492 - 75,294,631NCBIRnor6.0
Rnor_5.01674,909,008 - 74,909,147UniSTSRnor5.0
RGSC_v3.41674,980,161 - 74,980,300UniSTSRGSC3.4
Celera1668,171,480 - 68,171,619UniSTS
Cytogenetic Map16pUniSTS
PMC96815P5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21670,298,988 - 70,299,111 (+)MAPPERmRatBN7.2
Rnor_6.01675,294,512 - 75,294,634NCBIRnor6.0
Rnor_5.01674,909,028 - 74,909,150UniSTSRnor5.0
RGSC_v3.41674,980,181 - 74,980,303UniSTSRGSC3.4
Celera1668,171,500 - 68,171,622UniSTS
Cytogenetic Map16pUniSTS


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 4
Medium 25 2
Low 5 8 3 5 3 1 1 38 2 10 7 1
Below cutoff 1 12 14 7 8 7 7 7 6 2 12 1 7

Sequence


RefSeq Acc Id: ENSRNOT00000018427   ⟹   ENSRNOP00000018428
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1670,298,863 - 70,313,604 (-)Ensembl
Rnor_6.0 Ensembl1675,294,376 - 75,309,176 (-)Ensembl
RefSeq Acc Id: NM_031810   ⟹   NP_113998
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81677,001,326 - 77,016,068 (-)NCBI
mRatBN7.21670,298,862 - 70,313,604 (-)NCBI
Rnor_6.01675,294,385 - 75,309,127 (-)NCBI
Rnor_5.01674,908,901 - 74,923,643 (-)NCBI
RGSC_v3.41674,980,054 - 74,995,445 (-)RGD
Celera1668,171,373 - 68,186,246 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_113998 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC28071 (Get FASTA)   NCBI Sequence Viewer  
  AAC61871 (Get FASTA)   NCBI Sequence Viewer  
  EDM08977 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000018428
  ENSRNOP00000018428.2
  ENSRNOP00055011204
  ENSRNOP00060034063
  ENSRNOP00065010770
GenBank Protein O89117 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_113998   ⟸   NM_031810
- Peptide Label: precursor
- UniProtKB: O89117 (UniProtKB/Swiss-Prot),   A6IW95 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000018428   ⟸   ENSRNOT00000018427

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O89117-F1-model_v2 AlphaFold O89117 1-69 view protein structure

Transcriptome

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

Promoters
RGD ID:13700201
Promoter ID:EPDNEW_R10725
Type:multiple initiation site
Name:Defb1_1
Description:defensin beta 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01675,309,127 - 75,309,187EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619943 AgrOrtholog
BioCyc Gene G2FUF-10839 BioCyc
Ensembl Genes ENSRNOG00000013768 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055008262 UniProtKB/Swiss-Prot
  ENSRNOG00060023759 UniProtKB/Swiss-Prot
  ENSRNOG00065008999 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000018427 ENTREZGENE
  ENSRNOT00000018427.5 UniProtKB/Swiss-Prot
  ENSRNOT00055013977 UniProtKB/Swiss-Prot
  ENSRNOT00060041134 UniProtKB/Swiss-Prot
  ENSRNOT00065014374 UniProtKB/Swiss-Prot
InterPro Defensin_beta-typ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:83687 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 83687 ENTREZGENE
PANTHER BETA-DEFENSIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BETA-DEFENSIN-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Defensin_beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Defb1 PhenoGen
RatGTEx ENSRNOG00000013768 RatGTEx
  ENSRNOG00055008262 RatGTEx
  ENSRNOG00060023759 RatGTEx
  ENSRNOG00065008999 RatGTEx
Superfamily-SCOP Defensin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6IW95 ENTREZGENE, UniProtKB/TrEMBL
  DEFB1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Defb1  defensin beta 1      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Defb1        Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression ubiquitously expressed; enriched in kidney 727279
gene_protein 69 amino acids 727279