Defb41 (defensin beta 41) - Rat Genome Database

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Gene: Defb41 (defensin beta 41) Mus musculus
Analyze
Symbol: Defb41
Name: defensin beta 41
RGD ID: 1616685
MGI Page MGI
Description: Predicted to be involved in defense response to bacterium and innate immune response. Predicted to be located in extracellular region. Orthologous to human DEFB110 (defensin beta 110).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 9230102D03Rik; BD-17; BD-41; beta-defensin 16; beta-defensin 17; beta-defensin 41; Defb16; Defb17; defensin beta 17; Gm15386; mBD-41; predicted gene 15386
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39118,321,200 - 18,335,362 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl118,321,204 - 18,335,362 (-)EnsemblGRCm39 Ensembl
GRCm38118,250,978 - 18,265,138 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl118,250,980 - 18,265,138 (-)EnsemblGRCm38mm10GRCm38
MGSCv37118,241,061 - 18,255,219 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36118,236,194 - 18,250,352 (-)NCBIMGSCv36mm8
Celera118,154,496 - 18,168,654 (-)NCBICelera
Cytogenetic Map1A3NCBI
cM Map15.7NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Mouse MP Annotation Import Pipeline RGD automated import pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:15673606   PMID:16023745   PMID:16033865   PMID:16141072   PMID:16141073  
PMID:17062627   PMID:22701646   PMID:25366345   PMID:26987518   PMID:27695046   PMID:30057273  


Genomics

Comparative Map Data
Defb41
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39118,321,200 - 18,335,362 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl118,321,204 - 18,335,362 (-)EnsemblGRCm39 Ensembl
GRCm38118,250,978 - 18,265,138 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl118,250,980 - 18,265,138 (-)EnsemblGRCm38mm10GRCm38
MGSCv37118,241,061 - 18,255,219 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36118,236,194 - 18,250,352 (-)NCBIMGSCv36mm8
Celera118,154,496 - 18,168,654 (-)NCBICelera
Cytogenetic Map1A3NCBI
cM Map15.7NCBI
DEFB110
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38650,009,138 - 50,021,994 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl650,009,138 - 50,021,994 (-)EnsemblGRCh38hg38GRCh38
GRCh37649,976,851 - 49,989,707 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36650,084,810 - 50,097,607 (-)NCBINCBI36Build 36hg18NCBI36
Celera651,532,925 - 51,545,769 (-)NCBICelera
Cytogenetic Map6p12.3NCBI
HuRef649,708,361 - 49,721,197 (-)NCBIHuRef
CHM1_1649,979,603 - 49,992,446 (-)NCBICHM1_1
T2T-CHM13v2.0649,852,040 - 49,864,897 (-)NCBIT2T-CHM13v2.0
Defb17
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8928,376,792 - 28,380,421 (-)NCBIGRCr8
mRatBN7.2920,880,246 - 20,883,875 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx929,403,956 - 29,407,471 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0934,520,449 - 34,523,961 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0932,831,258 - 32,834,770 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0924,506,246 - 24,509,761 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl924,506,246 - 24,509,761 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0923,368,183 - 23,371,698 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4917,117,191 - 17,120,706 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera918,510,457 - 18,513,972 (-)NCBICelera
Cytogenetic Map9q13NCBI
Defb110
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554117,949,371 - 7,958,604 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554117,949,371 - 7,958,604 (+)NCBIChiLan1.0ChiLan1.0
DEFB110
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2564,490,472 - 64,503,869 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1660,356,350 - 60,369,748 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0649,576,886 - 49,589,981 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1650,836,526 - 50,849,388 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl650,836,526 - 50,849,388 (-)Ensemblpanpan1.1panPan2
DEFB110
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11217,831,200 - 17,836,319 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1217,831,221 - 17,836,278 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1217,703,146 - 17,732,241 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01218,301,597 - 18,330,690 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1218,325,571 - 18,330,629 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11217,813,428 - 17,842,521 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01217,919,534 - 17,948,598 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01218,049,705 - 18,078,802 (-)NCBIUU_Cfam_GSD_1.0
DEFB110
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl744,019,706 - 44,024,322 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1744,019,705 - 44,024,322 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2750,410,268 - 50,414,884 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DEFB110
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11722,389,852 - 22,393,523 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1722,390,429 - 22,393,388 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604449,975,994 - 49,990,247 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Defb110
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248556,224,893 - 6,228,902 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248556,224,893 - 6,228,902 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Defb41
582 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:88
Count of miRNA genes:83
Interacting mature miRNAs:88
Transcripts:ENSMUST00000088463
Prediction methods:Miranda, Rnahybrid, Targetscan
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301011Cplaq4_mcircadian period of locomotor activity 4 (mouse)Not determined1967344243673601Mouse
11039528Ccc3_mcolitis susceptibility in the Collaborative Cross 3 (mouse)13680142195051546Mouse
1301275Sle10_msystematic lupus erythematosus susceptibility 10 (mouse)Not determined1288219436882352Mouse
15092046Wngrme1_mweek nine growth rate, maternal effect 1 (mouse)1328014237782236Mouse
1301370Adip1_madiposity 1 (mouse)Not determined1288219436882352Mouse
13824984Twq5_mtestis weight QTL 5 (mouse)13069992184732197Mouse
15092044Wtgrme1_mweek ten growth rate, maternal effect 1 (mouse)1328014237782236Mouse
1301471Obq2_mobesity QTL 2 (mouse)Not determined1394162037941887Mouse
14700685Civq2_mcerebral infarct volume QTL 2 (mouse)11134048245340482Mouse
1301891Alcp25_malcohol preference locus 25 (mouse)Not determined1125203185Mouse
1300834Cia20_mcollagen induced arthritis 20 (mouse)Not determined1125203185Mouse
4141646Fecq3_mfecundity QTL 3 (mouse)Not determined11291692026517685Mouse
15092055Lgrme1_mlate growth rate, maternal effect 1 (mouse)1328014237782236Mouse
15092050Wsegrme1_mweek seven growth rate, maternal effect 1 (mouse)1328014237782236Mouse
15092051Wegrme1_mweek eight growth rate, maternal effect 1 (mouse)1328014237782236Mouse
15092048Wsigrme1_mweek six growth rate, maternal effect 1 (mouse)1328014237782236Mouse
1301482Morph1_mmorphine antinociception 1 (mouse)Not determined1130367747Mouse
10043970Obq23_mobesity QTL 23 (mouse)Not determined1501266539012665Mouse
10412226Alpq4_malcohol preference QTL 4 (mouse)Not determined1122976684Mouse


Sequence


Ensembl Acc Id: ENSMUST00000088463   ⟹   ENSMUSP00000085811
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl118,321,204 - 18,335,362 (-)Ensembl
GRCm38.p6 Ensembl118,250,980 - 18,265,138 (-)Ensembl
Ensembl Acc Id: ENSMUST00000097817   ⟹   ENSMUSP00000095426
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl118,330,748 - 18,335,304 (-)Ensembl
GRCm38.p6 Ensembl118,260,524 - 18,265,080 (-)Ensembl
RefSeq Acc Id: NM_001040027   ⟹   NP_001035116
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39118,330,615 - 18,335,362 (-)NCBI
GRCm38118,260,391 - 18,265,138 (-)NCBI
Celera118,164,040 - 18,168,654 (-)NCBI
Sequence:
RefSeq Acc Id: NM_183124   ⟹   NP_898947
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39118,321,200 - 18,335,362 (-)NCBI
GRCm38118,250,978 - 18,265,138 (-)ENTREZGENE
MGSCv37118,241,061 - 18,255,219 (-)RGD
Celera118,154,494 - 18,168,654 (-)ENTREZGENE
cM Map1 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_898947   ⟸   NM_183124
- Peptide Label: isoform 1 precursor
- UniProtKB: Q30KP6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001035116   ⟸   NM_001040027
- Peptide Label: isoform 2 precursor
- UniProtKB: Q4FZ55 (UniProtKB/Swiss-Prot),   Q8C1G4 (UniProtKB/Swiss-Prot),   Q30KP6 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000085811   ⟸   ENSMUST00000088463
Ensembl Acc Id: ENSMUSP00000095426   ⟸   ENSMUST00000097817

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q30KP6-F1-model_v2 AlphaFold Q30KP6 1-65 view protein structure

Promoters
RGD ID:6873252
Promoter ID:EPDNEW_M77
Type:multiple initiation site
Name:Defb41_1
Description:Mus musculus defensin beta 41 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38118,265,138 - 18,265,198EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1924923 AgrOrtholog
Ensembl Genes ENSMUSG00000067773 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000088463 ENTREZGENE
  ENSMUST00000088463.2 UniProtKB/Swiss-Prot
  ENSMUST00000097817 ENTREZGENE
  ENSMUST00000097817.4 UniProtKB/Swiss-Prot
InterPro Beta_defensin UniProtKB/Swiss-Prot
KEGG Report mmu:77673 UniProtKB/Swiss-Prot
MGD MGI:1924923 ENTREZGENE
NCBI Gene 77673 ENTREZGENE
PANTHER BETA-DEFENSIN UniProtKB/Swiss-Prot
  BETA-DEFENSIN 110 UniProtKB/Swiss-Prot
Pfam Defensin_beta_2 UniProtKB/Swiss-Prot
PhenoGen Defb41 PhenoGen
UniProt DFB41_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q4FZ55 ENTREZGENE
  Q8C1G4 ENTREZGENE
UniProt Secondary Q4FZ55 UniProtKB/Swiss-Prot
  Q8C1G4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-06 Defb41  defensin beta 41  Gm15386  predicted gene 15386  Data merged from RGD:1625923 737654 PROVISIONAL