Znf408 (zinc finger protein 408) - Rat Genome Database

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Gene: Znf408 (zinc finger protein 408) Rattus norvegicus
Analyze
Symbol: Znf408
Name: zinc finger protein 408
RGD ID: 2318583
Description: Predicted to enable identical protein binding activity. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in exudative vitreoretinopathy 6 and retinitis pigmentosa 72. Orthologous to human ZNF408 (zinc finger protein 408); INTERACTS WITH (-)-epigallocatechin 3-gallate (ortholog); 5-fluorouracil (ortholog); acrylamide (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC100362202
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8398,071,210 - 98,077,075 (-)NCBIGRCr8
mRatBN7.2377,615,595 - 77,621,325 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.0380,549,102 - 80,555,186 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0387,248,337 - 87,253,997 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4376,025,925 - 76,029,792 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera376,820,747 - 76,826,831 (-)NCBICelera
Cytogenetic Map3q24NCBI
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

Cellular Component
nucleus  (ISO)

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15231747   PMID:18255255   PMID:23716654   PMID:25416956   PMID:25882705  


Genomics

Comparative Map Data
Znf408
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8398,071,210 - 98,077,075 (-)NCBIGRCr8
mRatBN7.2377,615,595 - 77,621,325 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.0380,549,102 - 80,555,186 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0387,248,337 - 87,253,997 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4376,025,925 - 76,029,792 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera376,820,747 - 76,826,831 (-)NCBICelera
Cytogenetic Map3q24NCBI
ZNF408
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381146,701,031 - 46,705,912 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1146,701,030 - 46,705,912 (+)EnsemblGRCh38hg38GRCh38
GRCh371146,722,581 - 46,727,462 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361146,678,944 - 46,684,037 (+)NCBINCBI36Build 36hg18NCBI36
Build 341146,678,943 - 46,684,037NCBI
Celera1146,870,748 - 46,875,897 (+)NCBICelera
Cytogenetic Map11p11.2NCBI
HuRef1146,428,356 - 46,433,505 (+)NCBIHuRef
CHM1_11146,720,727 - 46,725,876 (+)NCBICHM1_1
T2T-CHM13v2.01146,857,047 - 46,861,916 (+)NCBIT2T-CHM13v2.0
Zfp408
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39291,473,101 - 91,480,372 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl291,474,014 - 91,480,136 (-)EnsemblGRCm39 Ensembl
GRCm38291,642,756 - 91,650,051 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl291,643,669 - 91,649,791 (-)EnsemblGRCm38mm10GRCm38
MGSCv37291,483,845 - 91,489,948 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36291,444,509 - 91,450,630 (-)NCBIMGSCv36mm8
Celera293,033,201 - 93,039,338 (-)NCBICelera
Cytogenetic Map2E1NCBI
cM Map250.63NCBI
Znf408
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554221,373,694 - 1,377,688 (-)NCBIChiLan1.0ChiLan1.0
ZNF408
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2948,906,001 - 48,911,189 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11148,925,805 - 48,930,960 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01146,651,421 - 46,656,514 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11147,209,922 - 47,215,070 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1147,209,922 - 47,215,070 (+)Ensemblpanpan1.1panPan2
ZNF408
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11842,808,820 - 42,813,422 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1842,808,874 - 42,813,276 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1841,537,548 - 41,542,223 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01843,464,083 - 43,469,596 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1843,464,932 - 43,469,385 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11842,949,121 - 42,954,632 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01842,505,620 - 42,510,240 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01843,234,035 - 43,239,549 (-)NCBIUU_Cfam_GSD_1.0
Znf408
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494720,283,174 - 20,289,249 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365622,393,751 - 2,400,650 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365622,394,368 - 2,400,924 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZNF408
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl215,826,654 - 15,834,246 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1215,829,489 - 15,834,549 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2217,180,517 - 17,185,354 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Znf408
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247671,900,429 - 1,905,612 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Znf408
31 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)33035677398535386Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)33370334778196190Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333703347104104347Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
738019Anxrr10Anxiety related response QTL 103.9exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)33851780383517803Rat
1331777Bw24Body weight QTL 243.503body mass (VT:0001259)body weight (CMO:0000012)33945463789115240Rat
1331795Rf30Renal function QTL 303.708urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)33945463789115240Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)341874578104104347Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)34382736490905114Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)350437504115638231Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)353184593115665732Rat
61377Edpm3Estrogen-dependent pituitary mass QTL 37.050.038pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)35318469289878207Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)35378111291609953Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)35378111291609953Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35378111291609953Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)361017749121056321Rat
631200Cm25Cardiac mass QTL 254.80.0001heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)36113434889115068Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)364655305115665732Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)364655305115665732Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)370348525121056321Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)370653097121056321Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)373376539118376539Rat


Expression


Sequence


RefSeq Acc Id: XM_003749532   ⟹   XP_003749580
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8398,071,210 - 98,077,075 (-)NCBI
mRatBN7.2377,615,595 - 77,621,325 (-)NCBI
Rnor_6.0380,549,102 - 80,555,186 (-)NCBI
Rnor_5.0387,248,337 - 87,253,997 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003749580 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000080857.1
RefSeq Acc Id: XP_003749580   ⟸   XM_003749532
- UniProtKB: A0A8I5ZQQ0 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
C2H2-type

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:2318583 AgrOrtholog
BioCyc Gene G2FUF-48723 BioCyc
Ensembl Genes ENSRNOG00000070459 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000112315.1 UniProtKB/TrEMBL
Gene3D-CATH Classic Zinc Finger UniProtKB/TrEMBL
InterPro Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
NCBI Gene 100362202 ENTREZGENE
PANTHER FINGER PUTATIVE TRANSCRIPTION FACTOR FAMILY-RELATED UniProtKB/TrEMBL
  ZINC FINGER AND BTB DOMAIN-CONTAINING UniProtKB/TrEMBL
Pfam zf-C2H2 UniProtKB/TrEMBL
PhenoGen Znf408 PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000070459 RatGTEx
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP beta-beta-alpha zinc fingers UniProtKB/TrEMBL
UniProt A0A8I5ZQQ0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-23 Znf408  zinc finger protein 408  LOC100362202  zinc finger protein 408  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-05 LOC100362202  zinc finger protein 408      Symbol and Name status set to provisional 70820 PROVISIONAL