Defb49 (defensin beta 49) - Rat Genome Database

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Gene: Defb49 (defensin beta 49) Rattus norvegicus
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Symbol: Defb49
Name: defensin beta 49
RGD ID: 1560245
Description: Predicted to be involved in defense response to bacterium and innate immune response. Predicted to be located in extracellular region. Orthologous to human DEFB133 (defensin beta 133 (pseudogene)); INTERACTS WITH bisphenol A; cadmium dichloride; indole-3-methanol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: beta-defensin 133; beta-defensin 49
RGD Orthologs
Human
Pig
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8928,329,236 - 28,333,898 (-)NCBIGRCr8
mRatBN7.2920,832,686 - 20,837,352 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,832,686 - 20,837,352 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx929,363,057 - 29,367,706 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0934,479,622 - 34,484,263 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0932,790,431 - 32,795,072 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0924,445,115 - 24,451,499 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl924,446,264 - 24,451,435 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0923,308,743 - 23,313,913 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4917,066,026 - 17,070,690 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera918,469,796 - 18,474,457 (-)NCBICelera
Cytogenetic Map9q13NCBI
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. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16033865  


Genomics

Comparative Map Data
Defb49
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8928,329,236 - 28,333,898 (-)NCBIGRCr8
mRatBN7.2920,832,686 - 20,837,352 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl920,832,686 - 20,837,352 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx929,363,057 - 29,367,706 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0934,479,622 - 34,484,263 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0932,790,431 - 32,795,072 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0924,445,115 - 24,451,499 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl924,446,264 - 24,451,435 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0923,308,743 - 23,313,913 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4917,066,026 - 17,070,690 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera918,469,796 - 18,474,457 (-)NCBICelera
Cytogenetic Map9q13NCBI
DEFB133
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38649,946,101 - 49,949,444 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl649,946,101 - 49,949,444 (-)EnsemblGRCh38hg38GRCh38
GRCh37649,913,814 - 49,917,157 (-)NCBIGRCh37GRCh37hg19GRCh37
Celera651,469,884 - 51,473,228 (-)NCBICelera
Cytogenetic Map6p12.3NCBI
HuRef649,645,375 - 49,648,719 (-)NCBIHuRef
CHM1_1649,916,565 - 49,919,908 (-)NCBICHM1_1
T2T-CHM13v2.0649,788,997 - 49,792,341 (-)NCBIT2T-CHM13v2.0
DEFB133
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl743,971,319 - 43,974,534 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1743,970,402 - 43,975,033 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1

Variants

.
Variants in Defb49
52 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:30
Count of miRNA genes:24
Interacting mature miRNAs:28
Transcripts:ENSRNOT00000060805
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat
724543Cm20Cardiac mass QTL 203.9heart mass (VT:0007028)calculated heart weight (CMO:0000073)91696139840594091Rat
631680Cm11Cardiac mass QTL 113.10.00089heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)92043051965430519Rat


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

reproductive system
High
Medium
Low 1
Below cutoff 1

Sequence


RefSeq Acc Id: ENSRNOT00000060805   ⟹   ENSRNOP00000057532
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl920,832,686 - 20,837,352 (-)Ensembl
Rnor_6.0 Ensembl924,446,264 - 24,451,435 (-)Ensembl
RefSeq Acc Id: NM_001037527   ⟹   NP_001032616
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8928,329,236 - 28,333,898 (-)NCBI
mRatBN7.2920,832,686 - 20,837,352 (-)NCBI
Rnor_6.0924,446,265 - 24,451,435 (-)NCBI
Rnor_5.0923,308,743 - 23,313,913 (-)NCBI
RGSC_v3.4917,066,026 - 17,070,690 (-)RGD
Celera918,469,796 - 18,474,457 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001032616 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAT51911 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000057532
  ENSRNOP00000057532.1
RefSeq Acc Id: NP_001032616   ⟸   NM_001037527
- Peptide Label: precursor
- UniProtKB: Q32ZF1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000057532   ⟸   ENSRNOT00000060805
Protein Domains
Beta-defensin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q32ZF1-F1-model_v2 AlphaFold Q32ZF1 1-84 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:1560245 AgrOrtholog
BioCyc Gene G2FUF-28059 BioCyc
Ensembl Genes ENSRNOG00000039651 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000060805 ENTREZGENE
  ENSRNOT00000060805.2 UniProtKB/TrEMBL
InterPro Beta_defensin UniProtKB/TrEMBL
KEGG Report rno:641653 UniProtKB/TrEMBL
NCBI Gene 641653 ENTREZGENE
Pfam Defensin_beta_2 UniProtKB/TrEMBL
PhenoGen Defb49 PhenoGen
RatGTEx ENSRNOG00000039651 RatGTEx
Superfamily-SCOP Defensin-like UniProtKB/TrEMBL
UniProt Q32ZF1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-11-07 Defb49  defensin beta 49    beta-defensin 49  Name updated 1299863 APPROVED
2006-02-09 Defb49  beta-defensin 49      Symbol and Name status set to provisional 70820 PROVISIONAL