Def8 (differentially expressed in FDCP 8 homolog) - Rat Genome Database

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Gene: Def8 (differentially expressed in FDCP 8 homolog) Rattus norvegicus
Analyze
Symbol: Def8
Name: differentially expressed in FDCP 8 homolog
RGD ID: 1309008
Description: Predicted to enable metal ion binding activity. Predicted to be involved in lysosome localization; positive regulation of bone resorption; and positive regulation of ruffle assembly. Orthologous to human DEF8 (differentially expressed in FDCP 8 homolog); INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: DEF-8; differentially expressed in FDCP 8; differentially expressed in FDCP 8 homolog (mouse); LOC307973
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21951,474,783 - 51,495,638 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1951,474,878 - 51,495,638 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1958,274,125 - 58,290,071 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01958,951,540 - 58,967,497 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01961,172,726 - 61,188,681 (+)NCBIRnor_WKY
Rnor_6.01956,238,353 - 56,259,867 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1956,243,408 - 56,259,196 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01966,949,601 - 66,969,857 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41953,765,017 - 53,781,294 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11953,769,897 - 53,786,171 (+)NCBI
Celera1950,712,066 - 50,727,943 (+)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:27777970  


Genomics

Comparative Map Data
Def8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21951,474,783 - 51,495,638 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1951,474,878 - 51,495,638 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1958,274,125 - 58,290,071 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01958,951,540 - 58,967,497 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01961,172,726 - 61,188,681 (+)NCBIRnor_WKY
Rnor_6.01956,238,353 - 56,259,867 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1956,243,408 - 56,259,196 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01966,949,601 - 66,969,857 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41953,765,017 - 53,781,294 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11953,769,897 - 53,786,171 (+)NCBI
Celera1950,712,066 - 50,727,943 (+)NCBICelera
Cytogenetic Map19q12NCBI
DEF8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381689,948,755 - 89,968,060 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1689,948,697 - 89,968,060 (+)EnsemblGRCh38hg38GRCh38
GRCh371690,015,163 - 90,034,468 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361688,542,652 - 88,561,968 (+)NCBINCBI36Build 36hg18NCBI36
Celera1675,080,190 - 75,100,010 (+)NCBICelera
Cytogenetic Map16q24.3NCBI
HuRef1675,708,713 - 75,727,359 (+)NCBIHuRef
CHM1_11691,427,253 - 91,446,352 (+)NCBICHM1_1
T2T-CHM13v2.01696,034,997 - 96,054,302 (+)NCBIT2T-CHM13v2.0
Def8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398124,169,695 - 124,193,275 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8124,150,266 - 124,190,009 (+)EnsemblGRCm39 Ensembl
GRCm388123,442,956 - 123,467,076 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8123,423,527 - 123,463,270 (+)EnsemblGRCm38mm10GRCm38
MGSCv378125,966,886 - 125,987,799 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368126,329,076 - 126,349,989 (+)NCBIMGSCv36mm8
Celera8127,679,290 - 127,701,748 (+)NCBICelera
Cytogenetic Map8E1NCBI
cM Map872.1NCBI
Def8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555413,412,484 - 3,424,869 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555413,412,534 - 3,424,010 (+)NCBIChiLan1.0ChiLan1.0
DEF8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11690,375,667 - 90,394,225 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1690,375,667 - 90,394,225 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01670,710,131 - 70,730,332 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
DEF8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1563,656,411 - 63,671,934 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl563,656,218 - 63,669,025 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha563,669,605 - 63,685,136 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0563,884,458 - 63,900,204 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl563,877,522 - 63,900,172 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1563,904,916 - 63,920,446 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0563,736,645 - 63,758,180 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0564,148,799 - 64,164,331 (-)NCBIUU_Cfam_GSD_1.0
Def8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934924,404,568 - 24,420,958 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936641157,931 - 174,536 (-)EnsemblSpeTri2.0
SpeTri2.0NW_004936641158,115 - 174,524 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DEF8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6140,908 - 160,692 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16140,854 - 160,936 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26293,386 - 307,179 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DEF8
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1575,274,379 - 75,294,458 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl575,275,190 - 75,295,178 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666047123,902 - 145,056 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Def8
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474699,543 - 119,535 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Def8
157 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:147
Count of miRNA genes:112
Interacting mature miRNAs:121
Transcripts:ENSRNOT00000000281
Prediction methods:Miranda
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
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194997648153225766Rat

Markers in Region
D8Ertd713e  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21951,495,420 - 51,495,634 (+)MAPPERmRatBN7.2
Rnor_6.01956,258,987 - 56,259,200NCBIRnor6.0
Rnor_5.01966,969,640 - 66,969,853UniSTSRnor5.0
RGSC_v3.41953,781,077 - 53,781,290UniSTSRGSC3.4
Celera1950,727,726 - 50,727,939UniSTS
Cytogenetic Map19q12UniSTS
AU049789  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21951,483,721 - 51,483,933 (+)MAPPERmRatBN7.2
Rnor_6.01956,247,291 - 56,247,502NCBIRnor6.0
Rnor_5.01966,957,898 - 66,958,109UniSTSRnor5.0
RGSC_v3.41953,768,900 - 53,769,111UniSTSRGSC3.4
Celera1950,715,953 - 50,716,164UniSTS
Cytogenetic Map19q12UniSTS


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 22 29 29 3 29 3 74 35 33 8
Low 2 21 28 12 16 12 8 8 8 3 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000281   ⟹   ENSRNOP00000000281
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1951,474,878 - 51,495,638 (+)Ensembl
Rnor_6.0 Ensembl1956,243,408 - 56,259,196 (+)Ensembl
RefSeq Acc Id: NM_001024774   ⟹   NP_001019945
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21951,479,838 - 51,495,638 (+)NCBI
Rnor_6.01956,243,408 - 56,259,204 (+)NCBI
Rnor_5.01966,949,601 - 66,969,857 (+)NCBI
RGSC_v3.41953,765,017 - 53,781,294 (+)RGD
Celera1950,712,066 - 50,727,943 (+)RGD
Sequence:
RefSeq Acc Id: XM_006255769   ⟹   XP_006255831
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21951,474,783 - 51,495,638 (+)NCBI
Rnor_6.01956,238,353 - 56,259,204 (+)NCBI
Rnor_5.01966,949,601 - 66,969,857 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039097795   ⟹   XP_038953723
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21951,474,861 - 51,495,638 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001019945 (Get FASTA)   NCBI Sequence Viewer  
  XP_006255831 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953723 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH97376 (Get FASTA)   NCBI Sequence Viewer  
  EDL92812 (Get FASTA)   NCBI Sequence Viewer  
  Q4V8I4 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001019945   ⟸   NM_001024774
- UniProtKB: Q4V8I4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006255831   ⟸   XM_006255769
- Peptide Label: isoform X1
- UniProtKB: Q4V8I4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000000281   ⟸   ENSRNOT00000000281
RefSeq Acc Id: XP_038953723   ⟸   XM_039097795
- Peptide Label: isoform X1
- UniProtKB: Q4V8I4 (UniProtKB/Swiss-Prot)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4V8I4-F1-model_v2 AlphaFold Q4V8I4 1-451 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:1309008 AgrOrtholog
BioCyc Gene G2FUF-5324 BioCyc
Ensembl Genes ENSRNOG00000000264 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000000281 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000000281 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7444965 IMAGE-MGC_LOAD
InterPro C1-like_sf UniProtKB/Swiss-Prot
  PE/DAG-bd UniProtKB/Swiss-Prot
  Zf-RING_9 UniProtKB/Swiss-Prot
KEGG Report rno:307973 UniProtKB/Swiss-Prot
MGC_CLONE MGC:114411 IMAGE-MGC_LOAD
NCBI Gene 307973 ENTREZGENE
Pfam C1_1 UniProtKB/Swiss-Prot
  zf-RING_9 UniProtKB/Swiss-Prot
PhenoGen Def8 PhenoGen
PROSITE ZF_DAG_PE_1 UniProtKB/Swiss-Prot
  ZF_DAG_PE_2 UniProtKB/Swiss-Prot
SMART DUF4206 UniProtKB/Swiss-Prot
  SM00109 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF57889 UniProtKB/Swiss-Prot
UniProt DEFI8_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-21 Def8  differentially expressed in FDCP 8 homolog  Def8  differentially expressed in FDCP 8 homolog (mouse)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-26 Def8  differentially expressed in FDCP 8 homolog (mouse)  Def8  differentially expressed in FDCP 8  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Def8  differentially expressed in FDCP 8  Def8_predicted  differentially expressed in FDCP 8 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Def8_predicted  differentially expressed in FDCP 8 (predicted)      Symbol and Name status set to approved 70820 APPROVED