Dpf3 (double PHD fingers 3) - Rat Genome Database

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Gene: Dpf3 (double PHD fingers 3) Rattus norvegicus
Analyze
Symbol: Dpf3
Name: double PHD fingers 3
RGD ID: 1309052
Description: Predicted to enable histone binding activity and transcription coregulator activity. Predicted to be involved in muscle cell differentiation; nervous system development; and regulation of DNA-templated transcription. Predicted to be located in nucleoplasm. Predicted to be part of nBAF complex. Orthologous to human DPF3 (double PHD fingers 3); PARTICIPATES IN histone modification pathway; SWI/SNF family mediated chromatin remodeling pathway; INTERACTS WITH (+)-schisandrin B; 17alpha-ethynylestradiol; 2,2',5,5'-tetrachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: D4, zinc and double PHD fingers, family 3; LOC102553599; LOC299186; LOC500691; RGD1563913; RGD1563913; zinc finger protein DPF3; zinc finger protein DPF3-like
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
mRatBN7.26102,841,403 - 103,125,558 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl6102,846,029 - 103,125,493 (-)Ensembl
Rnor_6.06106,660,569 - 106,971,310 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6106,721,349 - 106,971,250 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06114,855,815 - 114,948,894 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46107,220,740 - 107,441,096 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16107,224,114 - 107,340,405 (-)NCBI
Celera6100,742,714 - 100,957,100 (-)NCBICelera
Cytogenetic Map6q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. ATP-dependent chromatin remodeling: genetics, genomics and mechanisms. Hargreaves DC and Crabtree GR, Cell Res. 2011 Mar;21(3):396-420. doi: 10.1038/cr.2011.32. Epub 2011 Mar 1.
4. Readout of epigenetic modifications. Patel DJ and Wang Z, Annu Rev Biochem. 2013;82:81-118. doi: 10.1146/annurev-biochem-072711-165700.
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
9. The spectrum of SWI/SNF mutations, ubiquitous in human cancers. Shain AH and Pollack JR, PLoS One. 2013;8(1):e55119. doi: 10.1371/journal.pone.0055119. Epub 2013 Jan 23.
Additional References at PubMed
PMID:17640523   PMID:23785148   PMID:26582913  


Genomics

Comparative Map Data
Dpf3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26102,841,403 - 103,125,558 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl6102,846,029 - 103,125,493 (-)Ensembl
Rnor_6.06106,660,569 - 106,971,310 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6106,721,349 - 106,971,250 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06114,855,815 - 114,948,894 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46107,220,740 - 107,441,096 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16107,224,114 - 107,340,405 (-)NCBI
Celera6100,742,714 - 100,957,100 (-)NCBICelera
Cytogenetic Map6q24NCBI
DPF3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381472,609,034 - 72,894,101 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1472,609,034 - 72,894,101 (-)EnsemblGRCh38hg38GRCh38
GRCh371473,075,742 - 73,360,809 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361472,206,413 - 72,430,562 (-)NCBINCBI36hg18NCBI36
Build 341472,145,494 - 72,430,562NCBI
Celera1453,199,840 - 53,423,988 (-)NCBI
Cytogenetic Map14q24.2NCBI
HuRef1453,252,526 - 53,526,938 (-)NCBIHuRef
CHM1_11473,024,008 - 73,299,002 (-)NCBICHM1_1
T2T-CHM13v2.01466,814,656 - 67,099,787 (-)NCBI
Dpf3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391283,316,202 - 83,341,274 (-)NCBIGRCm39mm39
GRCm391283,260,525 - 83,534,510 (-)NCBIGRCm39mm39
GRCm39 Ensembl1283,260,519 - 83,534,490 (-)Ensembl
GRCm381283,213,751 - 83,487,736 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1283,213,745 - 83,487,716 (-)EnsemblGRCm38mm10GRCm38
MGSCv371284,370,185 - 84,451,885 (-)NCBIGRCm37mm9NCBIm37
MGSCv361284,188,054 - 84,377,456 (-)NCBImm8
Celera1284,715,281 - 84,933,664 (-)NCBICelera
Cytogenetic Map12D1NCBI
Dpf3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555232,454,908 - 2,709,262 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555232,423,035 - 2,718,930 (+)NCBIChiLan1.0ChiLan1.0
DPF3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11472,061,021 - 72,340,379 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1472,061,021 - 72,340,330 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01453,189,348 - 53,475,634 (-)NCBIMhudiblu_PPA_v0panPan3
DPF3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1846,020,591 - 46,178,600 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl846,030,180 - 46,140,948 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha845,702,134 - 45,960,986 (-)NCBI
ROS_Cfam_1.0846,242,685 - 46,502,777 (-)NCBI
ROS_Cfam_1.0 Ensembl846,246,289 - 46,502,757 (-)Ensembl
UMICH_Zoey_3.1845,911,551 - 46,170,956 (-)NCBI
UNSW_CanFamBas_1.0845,927,825 - 46,186,744 (-)NCBI
UU_Cfam_GSD_1.0846,318,226 - 46,578,115 (-)NCBI
Dpf3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864029,833,099 - 30,092,643 (+)NCBI
SpeTri2.0NW_0049364881,976,323 - 2,235,906 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DPF3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl795,982,462 - 96,254,318 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1795,974,422 - 96,254,354 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27101,794,920 - 101,849,980 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DPF3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12449,857,853 - 50,144,326 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2449,857,847 - 49,996,731 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605338,041,977 - 38,319,943 (-)NCBIVero_WHO_p1.0
Dpf3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473428,518,470 - 28,769,840 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462473428,518,435 - 28,779,658 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D6Rat13  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26102,872,536 - 102,872,683 (+)MAPPERmRatBN7.2
Rnor_6.06106,683,885 - 106,684,031NCBIRnor6.0
Rnor_5.06114,818,351 - 114,818,497UniSTSRnor5.0
RGSC_v3.46107,183,275 - 107,183,421UniSTSRGSC3.4
RGSC_v3.46107,183,274 - 107,183,421RGDRGSC3.4
RGSC_v3.16107,186,731 - 107,186,877RGD
Celera6100,705,264 - 100,705,408UniSTS
RH 3.4 Map6738.1RGD
RH 3.4 Map6738.1UniSTS
RH 2.0 Map6960.2RGD
SHRSP x BN Map661.2198RGD
FHH x ACI Map668.02RGD
Cytogenetic Map6q24UniSTS
D6Got134  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26103,038,265 - 103,038,422 (+)MAPPERmRatBN7.2
Rnor_6.06106,883,362 - 106,883,518NCBIRnor6.0
Rnor_5.06118,654,077 - 118,654,233UniSTSRnor5.0
RGSC_v3.46107,352,699 - 107,352,856RGDRGSC3.4
RGSC_v3.46107,352,700 - 107,352,856UniSTSRGSC3.4
RGSC_v3.16107,356,155 - 107,356,312RGD
Celera6100,870,688 - 100,870,844UniSTS
RH 3.4 Map6734.4UniSTS
RH 3.4 Map6734.4RGD
RH 2.0 Map6955.2RGD
Cytogenetic Map6q24UniSTS
RH131793  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26102,900,670 - 102,900,880 (+)MAPPERmRatBN7.2
Rnor_6.06106,712,017 - 106,712,226NCBIRnor6.0
Rnor_5.06114,846,483 - 114,846,692UniSTSRnor5.0
RGSC_v3.46107,211,408 - 107,211,617UniSTSRGSC3.4
Celera6100,733,395 - 100,733,604UniSTS
RH 3.4 Map6738.0UniSTS
Cytogenetic Map6q24UniSTS
RH142995  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26102,910,902 - 102,911,004 (+)MAPPERmRatBN7.2
Rnor_6.06106,722,249 - 106,722,350NCBIRnor6.0
Rnor_5.06114,856,715 - 114,856,816UniSTSRnor5.0
RGSC_v3.46107,221,640 - 107,221,741UniSTSRGSC3.4
Celera6100,743,614 - 100,743,715UniSTS
RH 3.4 Map6738.2UniSTS
Cytogenetic Map6q24UniSTS
AU047050  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26102,987,893 - 102,988,001 (+)MAPPERmRatBN7.2
Rnor_6.06106,831,737 - 106,831,844NCBIRnor6.0
Rnor_6.06106,799,190 - 106,799,297NCBIRnor6.0
Rnor_5.06114,932,417 - 114,932,524UniSTSRnor5.0
Rnor_5.06114,965,142 - 114,965,249UniSTSRnor5.0
RGSC_v3.46107,300,269 - 107,300,376UniSTSRGSC3.4
Celera6100,820,014 - 100,820,121UniSTS
Cytogenetic Map6q24UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)645790088104200226Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)657730540104085867Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)657730540104085867Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)658632962103632962Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)661747639106747639Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
1641904Alcrsp4Alcohol response QTL 4response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)667262953112262953Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)671201409116201409Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)672202632115200186Rat
70196BpQTLcluster7Blood pressure QTL cluster 76.82arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)672202632117202632Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)672202632130729475Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)672202632130919985Rat
1581550Pur8Proteinuria QTL 8total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)672227641130729205Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)672227641130729205Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)673463459109394713Rat
2293837Kiddil1Kidney dilation QTL 13.7kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)681132889104393926Rat
2293842Kiddil3Kidney dilation QTL 34.3kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)681132889104393926Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)682523650110548006Rat
1576302Schws4Schwannoma susceptibility QTL 40.0078nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)683190345106747639Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)684130881129130881Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)685140138130140138Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)685140138130140138Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)685311061133478515Rat
1300076Glom8Glomerulus QTL 870.000000009kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)686894788131894788Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)688047916133047916Rat
1331722Thshl1Thyroid stimulating hormone level QTL 111.70.0001blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)689762877106752806Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)693701310128713626Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)694968928137848904Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)694968928139968928Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)696833997140994061Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6100364669140994061Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6100671796132340886Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:26
Interacting mature miRNAs:26
Transcripts:ENSRNOT00000010926
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.


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 26 18 16 3 16 1 2 37 14 1
Low 3 17 39 25 16 25 7 9 37 35 27 11 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000010926   ⟹   ENSRNOP00000010926
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6102,910,003 - 103,125,493 (-)Ensembl
Rnor_6.0 Ensembl6106,721,349 - 106,971,250 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000097275   ⟹   ENSRNOP00000093966
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6102,846,029 - 103,125,493 (-)Ensembl
RefSeq Acc Id: NM_001191818   ⟹   NP_001178747
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26102,910,003 - 103,125,493 (-)NCBI
Rnor_6.06106,721,349 - 106,971,250 (-)NCBI
Rnor_5.06114,855,815 - 114,948,894 (-)NCBI
Celera6100,742,714 - 100,957,100 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764746   ⟹   XP_008762968
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26102,841,403 - 103,121,917 (-)NCBI
Rnor_6.06106,660,569 - 106,966,126 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764747   ⟹   XP_008762969
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26102,841,403 - 103,125,517 (-)NCBI
Rnor_6.06106,660,569 - 106,971,234 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764748   ⟹   XP_008762970
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26102,910,037 - 103,120,417 (-)NCBI
Rnor_6.06106,721,096 - 106,966,126 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764749   ⟹   XP_008762971
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26102,841,403 - 103,125,558 (-)NCBI
Rnor_6.06106,660,569 - 106,971,310 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764751   ⟹   XP_008762973
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26102,841,403 - 103,062,529 (-)NCBI
Rnor_6.06106,660,569 - 106,905,969 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039112020   ⟹   XP_038967948
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26102,899,432 - 103,120,423 (-)NCBI
RefSeq Acc Id: XM_039112021   ⟹   XP_038967949
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26102,841,403 - 103,120,429 (-)NCBI
RefSeq Acc Id: XM_039112022   ⟹   XP_038967950
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26102,910,322 - 103,120,424 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001178747   ⟸   NM_001191818
- UniProtKB: D3Z9E7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008762971   ⟸   XM_008764749
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008762969   ⟸   XM_008764747
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008762968   ⟸   XM_008764746
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008762973   ⟸   XM_008764751
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008762970   ⟸   XM_008764748
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000010926   ⟸   ENSRNOT00000010926
RefSeq Acc Id: XP_038967949   ⟸   XM_039112021
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038967948   ⟸   XM_039112020
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038967950   ⟸   XM_039112022
- Peptide Label: isoform X6
RefSeq Acc Id: ENSRNOP00000093966   ⟸   ENSRNOT00000097275
Protein Domains
C2H2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z9E7-F1-model_v2 AlphaFold D3Z9E7 1-357 view protein structure

Transcriptome

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

Promoters
RGD ID:13694711
Promoter ID:EPDNEW_R5235
Type:single initiation site
Name:Dpf3_1
Description:double PHD fingers 3
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_6.06106,971,241 - 106,971,301EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309052 AgrOrtholog
BioCyc Gene G2FUF-36858 BioCyc
Ensembl Genes ENSRNOG00000008086 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000010926 ENTREZGENE
  ENSRNOP00000010926.6 UniProtKB/TrEMBL
  ENSRNOP00000093966 ENTREZGENE
  ENSRNOP00000093966.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000010926 ENTREZGENE
  ENSRNOT00000010926.7 UniProtKB/TrEMBL
  ENSRNOT00000097275 ENTREZGENE
  ENSRNOT00000097275.1 UniProtKB/TrEMBL
InterPro DPF3 UniProtKB/TrEMBL
  Requiem/DPF_N_dom UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:299186 UniProtKB/TrEMBL
NCBI Gene 299186 ENTREZGENE
PANTHER PTHR10615:SF120 UniProtKB/TrEMBL
Pfam Requiem_N UniProtKB/TrEMBL
PhenoGen Dpf3 PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt A0A8I6AL27_RAT UniProtKB/TrEMBL
  D3Z9E7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Dpf3  double PHD fingers 3  Dpf3  D4, zinc and double PHD fingers, family 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-29 Dpf3  D4, zinc and double PHD fingers, family 3  LOC102553599  zinc finger protein DPF3-like  Data Merged 737654 PROVISIONAL
2015-07-29 Dpf3  D4, zinc and double PHD fingers, family 3  RGD1563913  RGD1563913  Data Merged 737654 PROVISIONAL
2013-12-17 LOC102553599  zinc finger protein DPF3-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 Dpf3  D4, zinc and double PHD fingers, family 3   Dpf3_predicted  D4, zinc and double PHD fingers, family 3 (predicted)  'predicted' is removed 2292626 APPROVED
2008-04-30 RGD1563913  RGD1563913   RGD1563913_predicted  RGD1563913 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1563913_predicted  RGD1563913 (predicted)  LOC500691  LOC500691  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500691  LOC500691      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Dpf3_predicted  D4, zinc and double PHD fingers, family 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED