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 Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 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


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Object Symbol
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Original Reference(s)
Defb1RatActinobacillus Infections  IEP 4892269mRNA:increased expression:gingival epitheliumRGD 
Defb1Ratasthma susceptibilityISODEFB1 (Homo sapiens)4892263DNA:SNP: :-1816 T>C (human)RGD 
Defb1Ratasthma  ISODEFB1 (Homo sapiens)4892254DNA:SNPs:5' utr:g.-52G>A more ...RGD 
Defb1Ratchronic obstructive pulmonary disease no_associationISODEFB1 (Homo sapiens)4892251DNA:SNPs: :multiple (human)RGD 
Defb1Ratchronic obstructive pulmonary disease  ISODEFB1 (Homo sapiens)1331523DNA:polymorphism (human)RGD 
Defb1Ratchronic obstructive pulmonary disease susceptibilityISODEFB1 (Homo sapiens)4892257DNA:polymorphism: :668C>G (human)RGD 
Defb1RatExperimental Diabetes Mellitus  IEP 2312491 RGD 
Defb1Ratlung disease severityISODEFB1 (Homo sapiens)4892247associated with Cystic Fibrosis and DNA:SNP:5' utr:c.-20G>A (human)RGD 
Defb1Ratlung disease disease_progressionISODEFB1 (Homo sapiens)4892259associated with Cystic Fibrosis and protein:decreased expression:respiratory system fluid/secretionRGD 
Defb1RatMandibular Neoplasms  ISODEFB1 (Homo sapiens)4892265protein:increased expression:respiratory system fluid/secretionRGD 
Defb1Ratobesity  IEP 4892260mRNA:decreased expression:kidneyRGD 
Defb1Ratotitis media  ISOLOC102004444 (Chinchilla lanigera)9068941 RGDPMID:22072973 and REF_RGD_ID:11554036
Defb1Ratpneumonia  ISODEFB1 (Homo sapiens)4892262protein:increased expression:serumRGD 
Defb1RatPseudomonas Infections no_associationISODEFB1 (Homo sapiens)4892248associated with Cystic Fibrosis more ...RGD 
Defb1RatPseudomonas Infections no_associationISODEFB1 (Homo sapiens)4892256associated with Cystic Fibrosis more ...RGD 
Defb1RatPseudomonas Infections susceptibilityISODEFB1 (Homo sapiens)4892250associated with Cystic Fibrosis more ...RGD 
Defb1Ratpulmonary alveolar proteinosis  ISODEFB1 (Homo sapiens)4892262protein:increased expression:respiratory system fluid/secretionRGD 
Defb1Ratpulmonary emphysema  ISODefb1 (Mus musculus)4892249mRNA:decreased expression:lungRGD 
Defb1Ratpulmonary fibrosis  ISODEFB1 (Homo sapiens)4892262protein:increased expression:serumRGD 
Defb1Ratpulmonary sarcoidosis  ISODEFB1 (Homo sapiens)4892262protein:increased expression:serumRGD 
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Original Reference(s)
Defb1RatRecombinant Chromosome 8 Syndrome  ISODEFB1 (Homo sapiens)8554872ClinVar Annotator: match by term: Recombinant 8 syndromeClinVarPMID:31690835
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Defb1Ratcontact dermatitis  ISODEFB1 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:25724174
Defb1RatProstatic Neoplasms  ISODEFB1 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:17013881

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Original Reference(s)
Defb1Rat(1->4)-beta-D-glucan multiple interactionsISODefb1 (Mus musculus)6480464[perfluorooctane sulfonic acid co-treated with Cellulose] results in increased expression of DEFB1 mRNACTDPMID:36331819
Defb1Rat1,1-dichloroethene decreases expressionISODefb1 (Mus musculus)6480464vinylidene chloride results in decreased expression of DEFB1 mRNACTDPMID:26682919
Defb1Rat1-naphthyl isothiocyanate increases expressionEXP 64804641-Naphthylisothiocyanate results in increased expression of DEFB1 mRNACTDPMID:30723492
Defb1Rat17beta-estradiol multiple interactionsISODEFB1 (Homo sapiens)6480464[Estradiol co-treated with Progesterone] results in decreased expression of DEFB1 mRNACTDPMID:20660070
Defb1Rat17beta-estradiol increases expressionEXP 6480464Estradiol results in increased expression of DEFB1 mRNACTDPMID:32145629
Defb1Rat17beta-estradiol multiple interactionsEXP 6480464[bisphenol A co-treated with Estradiol] results in decreased expression of DEFB1 mRNACTDPMID:26496021
Defb1Rat17beta-estradiol multiple interactionsISODefb1 (Mus musculus)6480464[Progesterone co-treated with Estradiol] results in increased expression of DEFB1 mRNACTDPMID:18367319
Defb1Rat17beta-estradiol increases expressionISODefb1 (Mus musculus)6480464Estradiol results in increased expression of DEFB1 mRNACTDPMID:19484750
Defb1Rat2,2',4,4'-Tetrabromodiphenyl ether decreases expressionEXP 64804642 more ...CTDPMID:27291303
Defb1Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionISODefb1 (Mus musculus)6480464Tetrachlorodibenzodioxin results in decreased expression of DEFB1 mRNACTDPMID:19770486
Defb1Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionEXP 6480464Tetrachlorodibenzodioxin results in decreased expression of DEFB1 mRNACTDPMID:32109520
Defb1Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISODefb1 (Mus musculus)6480464Tetrachlorodibenzodioxin affects the expression of DEFB1 mRNACTDPMID:26377647
Defb1Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionEXP 6480464Tetrachlorodibenzodioxin results in increased expression of DEFB1 mRNACTDPMID:20959002 and PMID:21215274
Defb1Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionISODEFB1 (Homo sapiens)6480464Tetrachlorodibenzodioxin results in decreased expression of DEFB1 mRNACTDPMID:19692669 and PMID:20106945
Defb1Rat2,3,7,8-Tetrachlorodibenzofuran decreases expressionEXP 64804642 more ...CTDPMID:32109520
Defb1Rat3,3',4,4',5-pentachlorobiphenyl increases expressionEXP 64804643 more ...CTDPMID:20959002
Defb1Rat3-chloropropane-1,2-diol decreases expressionEXP 6480464alpha-Chlorohydrin results in decreased expression of DEFB1 mRNACTDPMID:28522335
Defb1Rat4,4'-sulfonyldiphenol increases expressionISODefb1 (Mus musculus)6480464bisphenol S results in increased expression of DEFB1 mRNACTDPMID:39298647
Defb1Rat6-propyl-2-thiouracil decreases expressionEXP 6480464Propylthiouracil results in decreased expression of DEFB1 mRNACTDPMID:30047161
Defb1Ratactinomycin D multiple interactionsISODEFB1 (Homo sapiens)6480464[Dactinomycin co-treated with nutlin 3] results in increased expression of DEFB1 mRNACTDPMID:38460933

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Biological Process
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Original Reference(s)
Defb1Ratantimicrobial humoral immune response mediated by antimicrobial peptide involved_inISODEFB1 (Homo sapiens)1624291 PMID:12860195 and PMID:25122636RGDPMID:12860195 and PMID:25122636
Defb1Ratcalcium-mediated signaling involved_inISODEFB1 (Homo sapiens)1624291 PMID:25122636RGDPMID:25122636
Defb1Ratcalcium-mediated signaling involved_inISSUniProtKB:P600221600115GO_REF:0000024UniProtGO_REF:0000024
Defb1Ratdefense response involved_inIEAUniProtKB-KW:KW-02111600115GO_REF:0000043UniProtGO_REF:0000043
Defb1Ratdefense response involved_inIEAInterPro:IPR0018551600115GO_REF:0000002InterProGO_REF:0000002
Defb1Ratdefense response to bacterium acts_upstream_of_or_withinISODEFB1 (Homo sapiens)1624291 PMID:21115716RGDPMID:21115716
Defb1Ratdefense response to bacterium involved_inIEAUniProtKB-KW:KW-00441600115GO_REF:0000043UniProtGO_REF:0000043
Defb1Ratdefense response to Gram-negative bacterium involved_inISODEFB1 (Homo sapiens)1624291 PMID:25122636RGDPMID:25122636
Defb1Ratdefense response to Gram-negative bacterium involved_inIBAPANTHER:PTN000483422 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Defb1Ratdefense response to Gram-negative bacterium involved_inISSUniProtKB:P600221600115GO_REF:0000024UniProtGO_REF:0000024
Defb1Ratdefense response to Gram-positive bacterium involved_inISSUniProtKB:P600221600115GO_REF:0000024UniProtGO_REF:0000024
Defb1Ratdefense response to Gram-positive bacterium involved_inIBAPANTHER:PTN000483422 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Defb1Ratdefense response to Gram-positive bacterium involved_inISODEFB1 (Homo sapiens)1624291 PMID:25122636RGDPMID:25122636
Defb1Ratinnate immune response involved_inISODefb1 (Mus musculus)1624291 PMID:12010999RGDPMID:12010999
Defb1Ratinnate immune response involved_inIEAUniProtKB:P56386 and ensembl:ENSMUSP000000517541600115GO_REF:0000107EnsemblGO_REF:0000107
Defb1Ratinnate immune response in mucosa involved_inISODEFB1 (Homo sapiens)1624291 PMID:12860195RGDPMID:12860195
Defb1Ratinnate immune response in mucosa involved_inIBAPANTHER:PTN000483422 and UniProtKB:P600221600115GO_REF:0000033GO_CentralGO_REF:0000033
Defb1Ratkilling of cells of another organism  ISOLOC102004444 (Chinchilla lanigera)1624291 RGD (All species) and (All species)
Defb1Ratpositive regulation of flagellated sperm motility involved in capacitation involved_inISSUniProtKB:P600221600115GO_REF:0000024UniProtGO_REF:0000024
Defb1Ratpositive regulation of flagellated sperm motility involved in capacitation involved_inISODEFB1 (Homo sapiens)1624291 PMID:25122636RGDPMID:25122636
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Cellular Component
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Original Reference(s)
Defb1Ratextracellular region located_inIEAInterPro:IPR0018551600115GO_REF:0000002InterProGO_REF:0000002
Defb1Ratextracellular region located_inIEAUniProtKB-SubCell:SL-02431600115GO_REF:0000044UniProtGO_REF:0000044
Defb1Ratextracellular region located_inIEAUniProtKB-KW:KW-09641600115GO_REF:0000043UniProtGO_REF:0000043
Defb1Ratextracellular space located_inISODEFB1 (Homo sapiens)1624291 PMID:12860195 and PMID:21115716RGDPMID:12860195 and PMID:21115716
Defb1Ratextracellular space is_active_inIBAPANTHER:PTN000483422 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Defb1Ratextracellular space located_inISODEFB1 (Homo sapiens) and UniProtKB:P60022-PRO_00000068991624291 PMID:7628632RGDPMID:7628632
Defb1Ratmembrane located_inISSUniProtKB:P600221600115GO_REF:0000024UniProtGO_REF:0000024
Defb1Ratmembrane located_inIEAUniProtKB-KW:KW-04721600115GO_REF:0000043UniProtGO_REF:0000043
Defb1Ratmembrane located_inIEAUniProtKB-SubCell:SL-01621600115GO_REF:0000044UniProtGO_REF:0000044
Defb1Ratmembrane located_inISODEFB1 (Homo sapiens)1624291 PMID:23938203RGDPMID:23938203
Defb1Ratmicrovesicle located_inISSUniProtKB:P600221600115GO_REF:0000024UniProtGO_REF:0000024
Defb1Ratmicrovesicle located_inISODEFB1 (Homo sapiens)1624291 PMID:23938203RGDPMID:23938203
Defb1Ratsperm midpiece located_inISSUniProtKB:P600221600115GO_REF:0000024UniProtGO_REF:0000024
Defb1Ratsperm midpiece located_inISODEFB1 (Homo sapiens)1624291 PMID:25122636RGDPMID:25122636
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Molecular Function

  


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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
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PMID:7628632   PMID:9125149   PMID:12010999   PMID:12054642   PMID:12860195   PMID:19706017   PMID:21115716   PMID:23376485   PMID:23533145   PMID:23938203   PMID:25122636   PMID:31637753  



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

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Variants in Defb1
115 total Variants

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.


1 to 10 of 12 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
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
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat

1 to 10 of 12 rows
D16Got75  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81677,011,260 - 77,011,457 (+)Marker Load Pipeline
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 Map16691.5RGD
RH 3.4 Map16691.5UniSTS
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




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
2 8 23 66 40 42 20 13 20 6 112 40 56 42 30 22



Ensembl 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 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
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:
Ensembl Acc Id: ENSRNOP00000018428   ⟸   ENSRNOT00000018427
Beta-defensin-like

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


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

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


1 to 16 of 16 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-10839 BioCyc
Ensembl Genes ENSRNOG00000013768 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000018427 ENTREZGENE
  ENSRNOT00000018427.5 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:83687 UniProtKB/Swiss-Prot
NCBI Gene 83687 ENTREZGENE
PANTHER BETA-DEFENSIN 1 UniProtKB/Swiss-Prot
  BETA-DEFENSIN-RELATED UniProtKB/Swiss-Prot
Pfam Defensin_beta UniProtKB/Swiss-Prot
PhenoGen Defb1 PhenoGen
RatGTEx ENSRNOG00000013768 RatGTEx
Superfamily-SCOP Defensin-like UniProtKB/Swiss-Prot
UniProt A6IW95 ENTREZGENE, UniProtKB/TrEMBL
  DEFB1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
1 to 16 of 16 rows


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

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