Defb30 (defensin beta 30) - Rat Genome Database

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Gene: Defb30 (defensin beta 30) Rattus norvegicus
Analyze
Symbol: Defb30
Name: defensin beta 30
RGD ID: 1559641
Description: Predicted to be involved in defense response to bacterium and innate immune response. Predicted to be located in extracellular region. Orthologous to human DEFB135 (defensin beta 135); INTERACTS WITH bisphenol A; copper atom; copper(0).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: BD-30; beta-defensin 30; defensin, beta 30
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81541,470,697 - 41,474,458 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1541,470,697 - 41,474,458 (-)EnsemblGRCr8
mRatBN7.21537,294,713 - 37,298,474 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1537,296,602 - 37,298,479 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1539,161,730 - 39,163,521 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01540,312,540 - 40,314,331 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01538,757,272 - 38,759,065 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01546,220,136 - 46,223,429 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1546,221,592 - 46,223,385 (-)Ensemblrn6Rnor6.0
Rnor_5.01549,987,536 - 49,989,329 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41542,310,906 - 42,312,699 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1536,982,808 - 36,984,601 (-)NCBICelera
Cytogenetic Map15p12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

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

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:16033865   PMID:16457734  


Genomics

Comparative Map Data
Defb30
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81541,470,697 - 41,474,458 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1541,470,697 - 41,474,458 (-)EnsemblGRCr8
mRatBN7.21537,294,713 - 37,298,474 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1537,296,602 - 37,298,479 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1539,161,730 - 39,163,521 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01540,312,540 - 40,314,331 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01538,757,272 - 38,759,065 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01546,220,136 - 46,223,429 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1546,221,592 - 46,223,385 (-)Ensemblrn6Rnor6.0
Rnor_5.01549,987,536 - 49,989,329 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41542,310,906 - 42,312,699 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1536,982,808 - 36,984,601 (-)NCBICelera
Cytogenetic Map15p12NCBI
DEFB135
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38811,982,256 - 11,984,590 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl811,982,256 - 11,984,590 (+)Ensemblhg38GRCh38
GRCh37811,839,765 - 11,842,099 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36811,877,239 - 11,879,508 (+)NCBIBuild 36Build 36hg18NCBI36
Celera810,969,157 - 10,971,459 (+)NCBICelera
Cytogenetic Map8p23.1NCBI
HuRef810,770,570 - 10,772,839 (+)NCBIHuRef
CHM1_1812,281,236 - 12,283,505 (+)NCBICHM1_1
T2T-CHM13v2.087,755,679 - 7,758,013 (-)NCBIT2T-CHM13v2.0
Defb30
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391463,271,536 - 63,275,313 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1463,271,536 - 63,287,409 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381463,034,087 - 63,037,846 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1463,034,087 - 63,049,960 (-)Ensemblmm10GRCm38
MGSCv371463,652,924 - 63,656,683 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361461,988,197 - 61,991,943 (-)NCBIMGSCv36mm8
Celera1460,794,679 - 60,798,445 (-)NCBICelera
Cytogenetic Map14D1NCBI
cM Map1433.23NCBI
Defb135
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495540353,199,675 - 53,211,089 (+)NCBIChiLan1.0ChiLan1.0
DEFB135
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2722,230,270 - 22,234,533 (-)NCBINHGRI_mPanPan1-v2
DEFB135
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12525,926,517 - 25,927,860 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2525,926,568 - 25,927,854 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2526,583,582 - 26,584,925 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02526,081,472 - 26,082,815 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2526,081,561 - 26,082,727 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12526,026,253 - 26,027,595 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02525,930,920 - 25,932,262 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02526,082,150 - 26,083,492 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
DEFB135
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11415,143,118 - 15,145,096 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21416,308,942 - 16,333,926 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DEFB135
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl87,154,358 - 7,156,627 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605235,280,853 - 35,283,132 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Defb135
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11261,331,573 - 61,333,435 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Defb30
11 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:87
Count of miRNA genes:73
Interacting mature miRNAs:76
Transcripts:ENSRNOT00000059211
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15231575947315759Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15144836456Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152852773273527732Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152272835342072050Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15278592347785923Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154046315285463152Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat


Expression

RNA-SEQ Expression

circulatory system
ectoderm
endocrine system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
sensory system
visual system
8 8 4 1 10 8 7 2 11 1 1

Sequence


Ensembl Acc Id: ENSRNOT00000059211   ⟹   ENSRNOP00000055981
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1541,470,697 - 41,474,458 (-)Ensembl
mRatBN7.2 Ensembl1537,296,602 - 37,298,479 (-)Ensembl
Rnor_6.0 Ensembl1546,221,592 - 46,223,385 (-)Ensembl
RefSeq Acc Id: NM_001037531   ⟹   NP_001032620
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81541,470,697 - 41,474,458 (-)NCBI
mRatBN7.21537,294,713 - 37,298,474 (-)NCBI
Rnor_6.01546,221,592 - 46,223,385 (-)NCBI
Rnor_5.01549,987,536 - 49,989,329 (-)NCBI
RGSC_v3.41542,310,906 - 42,312,699 (-)RGD
Celera1536,982,808 - 36,984,601 (-)RGD
Sequence:
RefSeq Acc Id: NM_001412584   ⟹   NP_001399513
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81541,472,445 - 41,474,458 (-)NCBI
mRatBN7.21537,296,461 - 37,298,474 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001032620 (Get FASTA)   NCBI Sequence Viewer  
  NP_001399513 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAT51900 (Get FASTA)   NCBI Sequence Viewer  
  AAU04550 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000055981
  ENSRNOP00000055981.2
GenBank Protein Q32ZG2 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001032620   ⟸   NM_001037531
- Peptide Label: precursor
- UniProtKB: Q32ZG2 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000055981   ⟸   ENSRNOT00000059211
RefSeq Acc Id: NP_001399513   ⟸   NM_001412584
- Peptide Label: precursor
- UniProtKB: Q32ZG2 (UniProtKB/Swiss-Prot)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q32ZG2-F1-model_v2 AlphaFold Q32ZG2 1-75 view protein structure

Transcriptome

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

Promoters
RGD ID:13699774
Promoter ID:EPDNEW_R10296
Type:single initiation site
Name:Defb30_1
Description:defensin beta 30
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_6.01546,223,424 - 46,223,484EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1559641 AgrOrtholog
BioCyc Gene G2FUF-13440 BioCyc
Ensembl Genes ENSRNOG00000038758 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000059211 ENTREZGENE
  ENSRNOT00000059211.4 UniProtKB/Swiss-Prot
Gene3D-CATH Antimicrobial Peptide, Beta-defensin 2, Chain A UniProtKB/Swiss-Prot
InterPro Beta-defensin UniProtKB/Swiss-Prot
  Beta_defensin UniProtKB/Swiss-Prot
KEGG Report rno:641656 UniProtKB/Swiss-Prot
NCBI Gene 641656 ENTREZGENE
PANTHER BETA-DEFENSIN 123-RELATED UniProtKB/Swiss-Prot
  BETA-DEFENSIN 135 UniProtKB/Swiss-Prot
Pfam Defensin_beta_2 UniProtKB/Swiss-Prot
PhenoGen Defb30 PhenoGen
RatGTEx ENSRNOG00000038758 RatGTEx
UniProt DFB30_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-11-07 Defb30  defensin beta 30    beta-defensin 30  Name updated 1299863 APPROVED
2006-02-09 Defb30  beta-defensin 30      Symbol and Name status set to provisional 70820 PROVISIONAL