Defb29 (defensin beta 29) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Defb29 (defensin beta 29) Mus musculus
Analyze
Symbol: Defb29
Name: defensin beta 29
RGD ID: 1623922
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 DEFB116 (defensin beta 116).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 0610030I09Rik; BD-29; beta-defensin 29; defensin, beta 29; mBD-29
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392152,380,634 - 152,381,961 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2152,380,634 - 152,382,018 (-)EnsemblGRCm39 Ensembl
GRCm382152,538,714 - 152,540,041 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2152,538,714 - 152,540,098 (-)EnsemblGRCm38mm10GRCm38
MGSCv372152,364,450 - 152,365,777 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362152,230,155 - 152,231,482 (-)NCBIMGSCv36mm8
Cytogenetic Map2H1NCBI
cM Map275.24NCBI
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

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:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:12819133   PMID:14610273   PMID:16141072   PMID:16141073  


Genomics

Comparative Map Data
Defb29
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392152,380,634 - 152,381,961 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2152,380,634 - 152,382,018 (-)EnsemblGRCm39 Ensembl
GRCm382152,538,714 - 152,540,041 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2152,538,714 - 152,540,098 (-)EnsemblGRCm38mm10GRCm38
MGSCv372152,364,450 - 152,365,777 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362152,230,155 - 152,231,482 (-)NCBIMGSCv36mm8
Cytogenetic Map2H1NCBI
cM Map275.24NCBI
DEFB116
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382031,303,212 - 31,308,585 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2031,303,212 - 31,308,585 (-)EnsemblGRCh38hg38GRCh38
GRCh372029,891,015 - 29,896,388 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362029,354,676 - 29,360,049 (-)NCBINCBI36Build 36hg18NCBI36
Celera2026,647,281 - 26,652,654 (-)NCBICelera
Cytogenetic Map20q11.21NCBI
HuRef2026,679,780 - 26,685,153 (-)NCBIHuRef
CHM1_12029,794,966 - 29,800,339 (-)NCBICHM1_1
T2T-CHM13v2.02033,027,357 - 33,032,730 (-)NCBIT2T-CHM13v2.0
Defb29
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83161,464,380 - 161,472,484 (-)NCBIGRCr8
mRatBN7.23141,004,098 - 141,009,379 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3141,004,098 - 141,005,557 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3144,909,366 - 144,914,668 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03153,493,208 - 153,498,510 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03151,233,225 - 151,238,493 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03148,008,820 - 148,014,101 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3148,008,851 - 148,010,176 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03154,353,772 - 154,359,053 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43142,860,674 - 142,865,955 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3139,754,949 - 139,760,230 (-)NCBICelera
Cytogenetic Map3q41NCBI
Defb116
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542229,569,787 - 29,613,939 (+)NCBIChiLan1.0ChiLan1.0
DEFB116
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22136,997,464 - 37,002,834 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12036,990,561 - 36,995,931 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02027,595,348 - 27,600,718 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12028,231,909 - 28,237,278 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2028,231,909 - 28,237,278 (-)Ensemblpanpan1.1panPan2
DEFB116
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12420,833,054 - 20,840,751 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2420,832,841 - 20,841,100 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2420,480,174 - 20,487,871 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02421,519,185 - 21,526,885 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2421,519,185 - 21,526,885 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12420,797,534 - 20,805,231 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02420,902,429 - 20,910,145 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02421,333,046 - 21,340,761 (-)NCBIUU_Cfam_GSD_1.0
Defb116
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640169,924,799 - 169,925,171 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493648518,356,163 - 18,356,535 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DEFB116
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1735,064,505 - 35,067,035 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11735,063,977 - 35,067,003 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21739,993,670 - 39,999,112 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DEFB116
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1235,734,438 - 35,741,006 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl235,735,264 - 35,740,566 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605091,222,108 - 91,222,519 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:108
Count of miRNA genes:104
Interacting mature miRNAs:107
Transcripts:ENSMUST00000060598
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301907Rends_mrenal disease susceptibility (mouse)Not determined2135699221169699361Mouse
1301783Bhr1_mbronchial hyperresponsiveness 1 (mouse)Not determined2142593476178442452Mouse
12790983Bwq12_mbody weight QTL 12 (mouse)2148238204181755017Mouse
1301019Bmd6_mbone mineral density 6 (mouse)Not determined2151778297181755017Mouse
12910799Pwgrq2_mpre-weaning growth rate QTL 2 (mouse)2118589253160611165Mouse
1558939Gnf1_mgrowth and fatness 1 (mouse)Not determined2143773445169117924Mouse
13825247Agoc2_magouti coat color QTL 2 (mouse)2151841920159841920Mouse
12910795Pwbwq5_mpost-weaning body weight QTL 5 (mouse)2118589253160611165Mouse
1300867Lore2_mloss of righting induced by ethanol 2 (mouse)Not determined2144515861180896594Mouse
1558917Gct8_mgranulosa cell tumorigenesis 8 (mouse)Not determined2149236907181755017Mouse
27226761Feml18_mfemur length 18, 16 week (mouse)294230345154241920Mouse
12910812Pwgrq1_mpre-weaning growth rate QTL 1 (mouse)2118589253160611165Mouse
14747002Mancz3_mmandible centroid size 3 (mouse)2152329820181755017Mouse
12910814Pwbwq1_mpre-weaning body weight QTL 1 (mouse)2118589253160611165Mouse
1300751Bdt1_mbone density traits 1 (mouse)Not determined2149988902181755017Mouse
10045885Cplaq15_mcircadian period of locomotor activity 15 (mouse)Not determined2110916118154354667Mouse
10054066Bwq9_mbody weight QTL 9 (mouse)Not determined2135699221169699361Mouse
1301822Pgia2_mproteoglycan induced arthritis 2 (mouse)Not determined2123937311157937424Mouse
1558842Tailq2_mtail length QTL 2 (mouse)Not determined2151640941162737074Mouse
10043956Gnf5_mgrowth and fatness 5 (mouse)Not determined2135699221169699361Mouse
5491197Mobq5_mmultigenic obesity QTL 5 (mouse)Not determined265269746162518926Mouse
10412080Hylaq2_mHyperlocomotor activity related QTL 2 (mouse)Not determined2151640941164119146Mouse
5491196Mobq6_mmultigenic obesity QTL 6 (mouse)Not determined285724269180896594Mouse
1357862Epfq1_mepididymal fat pad weight QTL 1 (mouse)Not determined2151640941162737074Mouse
1301031Bdln3_mbody length 3 (mouse)Not determined2127664019161664118Mouse
1357484Bsbob_mBSB obesity (mouse)Not determined2143773445165665019Mouse
4141703Chlq13_mcirculating hormone level QTL 13 (mouse)Not determined2135699221169699361Mouse
11341717Rvfs1_mRift Valley fever susceptibility 1 (mouse)2135432544173449616Mouse
27226788Feml13_mfemur length 13, 10 week (mouse)2102630345159941920Mouse
4142211Nilac3_mnicotine induced locomotor activity 3 (mouse)Not determined2148664893181755017Mouse
1301294Hrtfm5_mheart failure modifier 5 (mouse)Not determined2122883015156883131Mouse
11038701Ltpr2e_mLeishmania tropica response 2e (mouse)2150212221181755017Mouse
11038702Ltpr2_mLeishmania tropica response 2 (mouse)2103095716167212356Mouse
4142450Lmr16_mleishmaniasis resistance 16 (mouse)Not determined2150212221181755017Mouse
1301085Lrnx10_mlearning-contextual 10 (mouse)Not determined2150212221181755017Mouse
11353826Bdln10_mbody length 10 (mouse)2140441482174441482Mouse
1300806Aod4_mautoimmune ovarian dysgenesis 4 (mouse)Not determined2145228719179228841Mouse
4141033Wg2d_mweight gain in high growth mice 2d (mouse)Not determined143773445160303008Mouse
1357772Scfq1_msubcutaneous fat pad weight QTL 1 (mouse)Not determined2151640941162737074Mouse
1301961Bts1_mbladder tumor susceptibility 1 (mouse)Not determined2132024159166024330Mouse
1301618Bglu1_mblood glucose level 1 (mouse)Not determined2117942930174324863Mouse
27226749Femd10_mfemur midshaft diameter 10, 16 week (mouse)2124441920168241920Mouse
1302143Bwq5_mbody weight (mouse)Not determined2127664019161664118Mouse
1302013Tbbmd3_mtotal body bone mineral density 3 (mouse)Not determined2145196949179197085Mouse
12880427V25Dq3_mvitamin D inactive form serum level QTL 3 (mouse)2129341920163341920Mouse
13504830Bacsq1_mbaculum shape QTL 1 (mouse)2145716184161016184Mouse
12801456Intmrm1_mintima/media ratio modifier 1 (mouse)2142428347176428450Mouse
12801461Intim1_mintima modifier 1 (mouse)2142428347176428450Mouse
11049566Lmr28e_mleishmaniasis resistance 28e (mouse)2133144911167145058Mouse
11049567Lmr28f_mleishmaniasis resistance 28f (mouse)2133144911167145058Mouse
1301865Hdlq19_mHDL QTL 19 (mouse)Not determined2145518775179518926Mouse
12910520Scgq3_mspontaneous crescentic glomerulonephritis QTL 3 (mouse)2151709273174389124Mouse
1300846Pbwg11_mpostnatal body weight growth 11 (mouse)Not determined2138966600172966729Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000060598   ⟹   ENSMUSP00000052589
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl2152,380,634 - 152,382,018 (-)Ensembl
GRCm38.p6 Ensembl2152,538,714 - 152,540,098 (-)Ensembl
RefSeq Acc Id: NM_001001444   ⟹   NP_001001444
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm392152,380,634 - 152,381,961 (-)NCBI
GRCm382152,538,714 - 152,540,041 (-)NCBI
MGSCv372152,364,450 - 152,365,777 (-)RGD
cM Map2 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001001444 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI46011 (Get FASTA)   NCBI Sequence Viewer  
  AAI46013 (Get FASTA)   NCBI Sequence Viewer  
  AAN77095 (Get FASTA)   NCBI Sequence Viewer  
  BAC25003 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000052589
  ENSMUSP00000052589.3
GenBank Protein Q8BGW9 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001001444   ⟸   NM_001001444
- Peptide Label: precursor
- UniProtKB: Q8BGW9 (UniProtKB/Swiss-Prot),   A3KGR0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000052589   ⟸   ENSMUST00000060598
Protein Domains
Beta-defensin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8BGW9-F1-model_v2 AlphaFold Q8BGW9 1-78 view protein structure

Promoters
RGD ID:6879196
Promoter ID:EPDNEW_M3049
Type:initiation region
Name:Defb29_1
Description:Mus musculus defensin beta 29 , 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
GRCm382152,540,045 - 152,540,105EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1922650 AgrOrtholog
Ensembl Genes ENSMUSG00000044249 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000060598 ENTREZGENE
  ENSMUST00000060598.4 UniProtKB/Swiss-Prot
InterPro Beta_defensin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:75400 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1922650 ENTREZGENE
NCBI Gene 75400 ENTREZGENE
Pfam Defensin_beta_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Defb29 PhenoGen
UniProt A3KGR0 ENTREZGENE, UniProtKB/TrEMBL
  DFB29_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE