Nfix (nuclear factor I X) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Nfix (nuclear factor I X) Rattus norvegicus
Analyze
Symbol: Nfix
Name: nuclear factor I X
RGD ID: 69080
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and chromatin binding activity. Predicted to be involved in several processes, including atrioventricular canal morphogenesis; endochondral ossification; and nervous system development. Predicted to act upstream of or within several processes, including learning or memory; myeloid leukocyte differentiation; and nervous system development. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Marshall-Smith syndrome and Sotos syndrome 2. Orthologous to human NFIX (nuclear factor I X); INTERACTS WITH 1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: NF1-X1 protein; Nf1x; nuclear factor 1 X; nuclear factor 1 X-type; nuclear factor I/X; nuclear factor I/X (CCAAT-binding transcription factor)
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
GRCr81940,259,873 - 40,356,966 (+)NCBIGRCr8
mRatBN7.21923,355,388 - 23,450,360 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1923,355,498 - 23,448,265 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1930,178,323 - 30,271,128 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01930,832,693 - 30,925,505 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01933,055,373 - 33,148,200 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01925,818,640 - 25,914,777 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1925,821,780 - 25,914,696 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01936,794,504 - 36,890,430 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41925,018,352 - 25,111,367 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11925,023,177 - 25,097,311 (+)NCBI
Celera1922,941,014 - 23,001,968 (+)NCBICelera
Cytogenetic Map19q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrobenzenesulfonic acid  (ISO)
2,4-dinitrotoluene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP,ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,4-methylenedioxymethamphetamine  (EXP,ISO)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amosite asbestos  (ISO)
amphetamine  (EXP)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bosentan  (ISO)
buta-1,3-diene  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
carmustine  (ISO)
chloroprene  (EXP)
chlorpyrifos  (EXP)
choline  (ISO)
cisplatin  (ISO)
copper(II) chloride  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
dibutyl phthalate  (EXP)
dichromium trioxide  (ISO)
dicrotophos  (ISO)
diuron  (EXP)
doxorubicin  (EXP,ISO)
epoxiconazole  (ISO)
ethanol  (EXP,ISO)
fenthion  (ISO)
fenvalerate  (EXP)
fipronil  (EXP)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
gamma-hexachlorocyclohexane  (EXP)
gentamycin  (EXP)
glafenine  (EXP)
hydrogen peroxide  (ISO)
inulin  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
lipopolysaccharide  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methapyrilene  (ISO)
methidathion  (ISO)
methotrexate  (ISO)
methoxychlor  (EXP,ISO)
N-ethyl-N-nitrosourea  (EXP)
nickel atom  (ISO)
niclosamide  (ISO)
p-toluidine  (EXP)
paracetamol  (EXP)
PCB138  (ISO)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
phosgene  (ISO)
pirinixic acid  (ISO)
poly(vinylpyrrolidone)  (EXP)
procymidone  (EXP)
progesterone  (ISO)
propiconazole  (ISO)
resveratrol  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
silver atom  (EXP)
silver(0)  (EXP)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichloroethene  (EXP,ISO)
triclosan  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)
venlafaxine hydrochloride  (EXP)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
astrocyte differentiation  (ISO)
atrioventricular canal morphogenesis  (ISO)
bone mineralization  (ISO)
brain development  (ISO)
brain morphogenesis  (ISO)
camera-type eye development  (ISO)
cell maturation  (ISO)
cell morphogenesis  (ISO)
cell proliferation in forebrain  (ISO)
cellular response to BMP stimulus  (ISO)
cerebellar cortex morphogenesis  (ISO)
cerebellar granule cell differentiation  (ISO)
cerebellar Purkinje cell layer development  (ISO)
cerebellum development  (ISO)
cerebral cortex development  (ISO)
collateral sprouting  (ISO)
DNA replication  (IEA)
ear development  (ISO)
endochondral ossification  (ISO)
epithelium development  (ISO)
exit from mitosis  (ISO)
forebrain development  (ISO)
forebrain radial glial cell differentiation  (ISO)
gene expression  (ISO)
generation of neurons  (ISO)
glial cell development  (ISO)
glial cell fate specification  (ISO)
glial cell proliferation  (ISO)
gliogenesis  (ISO)
hippocampus development  (ISO)
homeostasis of number of cells within a tissue  (ISO)
inflammatory response  (ISO)
lateral ventricle development  (ISO)
learning  (ISO)
macrophage differentiation  (ISO)
memory  (ISO)
multicellular organism growth  (ISO)
negative regulation of neuron apoptotic process  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
neural precursor cell proliferation  (ISO)
neuroblast differentiation  (ISO)
neuroblast migration  (ISO)
neuroblast proliferation  (ISO)
neurogenesis  (ISO)
neuron differentiation  (ISO)
neuron fate specification  (ISO)
olfactory bulb development  (ISO)
oligodendrocyte differentiation  (ISO)
osteoclast differentiation  (ISO)
osteoclast proliferation  (ISO)
phagocytosis  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
regeneration  (ISO)
regulation of transcription by RNA polymerase II  (IBA)
response to wounding  (ISO)
retina development in camera-type eye  (ISO)
Rho protein signal transduction  (ISO)
skeletal muscle satellite cell differentiation  (ISO)
skeletal muscle tissue development  (ISO)
skeletal muscle tissue regeneration  (ISO)
skeletal system development  (ISO)
social behavior  (ISO)
spinal cord development  (ISO)
stem cell population maintenance  (ISO)
tissue homeostasis  (ISO)
transcription by RNA polymerase II  (ISO)

Cellular Component
nucleoplasm  (ISO)
nucleus  (IBA,ISO)

References

References - curated
# Reference Title Reference Citation
1. Identification of NFI-binding sites and cloning of NFI-cDNAs suggest a regulatory role for NFI transcription factors in olfactory neuron gene expression. Baumeister H, etal., Brain Res Mol Brain Res 1999 Sep 8;72(1):65-79.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. Expression, DNA-binding specificity and transcriptional regulation of nuclear factor 1 family proteins from rat. Osada S, etal., Biochem J 1999 Aug 15;342 ( Pt 1)(21):189-98.
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Localization of 54 rat genes, and definition of new synteny groups conserved in the human and the rat. Szpirer C, etal., Mamm Genome 2000 Sep;11(9):729-35
Additional References at PubMed
PMID:9056636   PMID:9660824   PMID:16147868   PMID:16204235   PMID:19706729   PMID:21800304   PMID:24895400   PMID:33633191  


Genomics

Comparative Map Data
Nfix
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81940,259,873 - 40,356,966 (+)NCBIGRCr8
mRatBN7.21923,355,388 - 23,450,360 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1923,355,498 - 23,448,265 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1930,178,323 - 30,271,128 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01930,832,693 - 30,925,505 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01933,055,373 - 33,148,200 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01925,818,640 - 25,914,777 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1925,821,780 - 25,914,696 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01936,794,504 - 36,890,430 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41925,018,352 - 25,111,367 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11925,023,177 - 25,097,311 (+)NCBI
Celera1922,941,014 - 23,001,968 (+)NCBICelera
Cytogenetic Map19q11NCBI
NFIX
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381912,995,475 - 13,098,796 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1912,995,475 - 13,098,796 (+)EnsemblGRCh38hg38GRCh38
GRCh371913,106,289 - 13,209,610 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361912,967,584 - 13,070,610 (+)NCBINCBI36Build 36hg18NCBI36
Build 341912,967,583 - 13,070,610NCBI
Celera1912,996,993 - 13,100,014 (+)NCBICelera
Cytogenetic Map19p13.13NCBI
HuRef1912,707,303 - 12,782,249 (+)NCBIHuRef
CHM1_11913,107,626 - 13,210,624 (+)NCBICHM1_1
T2T-CHM13v2.01913,120,686 - 13,224,010 (+)NCBIT2T-CHM13v2.0
Nfix
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39885,431,341 - 85,527,086 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl885,426,505 - 85,526,973 (-)EnsemblGRCm39 Ensembl
GRCm38884,704,712 - 84,801,238 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl884,699,876 - 84,800,344 (-)EnsemblGRCm38mm10GRCm38
MGSCv37887,231,498 - 87,324,239 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36887,598,719 - 87,690,245 (-)NCBIMGSCv36mm8
Celera889,007,669 - 89,082,215 (-)NCBICelera
Cytogenetic Map8C3NCBI
cM Map841.02NCBI
Nfix
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541532,055,375 - 32,117,833 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541532,055,926 - 32,121,611 (+)NCBIChiLan1.0ChiLan1.0
NFIX
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22017,924,044 - 18,027,343 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11916,924,649 - 17,027,957 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01912,557,020 - 12,660,316 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11913,315,482 - 13,402,406 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1913,327,690 - 13,402,406 (+)Ensemblpanpan1.1panPan2
NFIX
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12049,117,087 - 49,187,023 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2049,117,943 - 49,214,788 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2048,989,635 - 49,094,158 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02049,634,123 - 49,738,501 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2049,635,376 - 49,703,891 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12048,845,676 - 48,949,981 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02049,272,022 - 49,376,246 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02049,514,448 - 49,619,003 (-)NCBIUU_Cfam_GSD_1.0
Nfix
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118208,221,747 - 208,289,349 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366592,065,458 - 2,136,889 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366592,065,410 - 2,136,898 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NFIX
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl265,954,811 - 66,056,567 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1265,954,808 - 66,056,591 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2266,321,736 - 66,402,215 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NFIX
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1611,705,323 - 11,778,943 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl611,706,060 - 11,776,083 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660748,003,657 - 8,106,509 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nfix
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624901550,931 - 646,417 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624901551,277 - 645,435 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Nfix
317 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:33
Count of miRNA genes:32
Interacting mature miRNAs:33
Transcripts:ENSRNOT00000039354
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124688055Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)191392640130303727Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)191511459834521833Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
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

Markers in Region
NFIX  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01936,862,093 - 36,862,339NCBIRnor5.0
RGSC_v3.41925,046,645 - 25,046,890UniSTSRGSC3.4
Celera1922,941,188 - 22,941,433UniSTS
Cytogenetic Map19q11UniSTS
UniSTS:474756  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21923,383,435 - 23,383,753 (-)MAPPERmRatBN7.2
Rnor_6.01925,886,456 - 25,886,773NCBIRnor6.0
Rnor_5.01936,862,079 - 36,862,396UniSTSRnor5.0
RGSC_v3.41925,046,588 - 25,046,905UniSTSRGSC3.4
Celera1922,941,131 - 22,941,448UniSTS
Cytogenetic Map19q11UniSTS


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 2 33 30 20 12 20 8 11 64 24 32 11 8
Low 1 8 27 21 7 21 8 11 6
Below cutoff 2 2 3

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_030866 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255308 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772418 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772419 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098011 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278301 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278304 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278305 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278306 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278308 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB012234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB012235 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC120246 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF112459 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000039354   ⟹   ENSRNOP00000034591
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1923,355,498 - 23,448,265 (+)Ensembl
Rnor_6.0 Ensembl1925,821,949 - 25,914,696 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000091994   ⟹   ENSRNOP00000071775
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1923,381,795 - 23,448,265 (+)Ensembl
Rnor_6.0 Ensembl1925,821,780 - 25,914,689 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101795   ⟹   ENSRNOP00000082587
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1923,381,795 - 23,448,265 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000117437   ⟹   ENSRNOP00000096564
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1923,383,097 - 23,448,265 (+)Ensembl
RefSeq Acc Id: NM_030866   ⟹   NP_110493
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,260,339 - 40,353,100 (+)NCBI
mRatBN7.21923,355,498 - 23,448,273 (+)NCBI
Rnor_6.01925,821,941 - 25,914,696 (-)NCBI
Rnor_5.01936,794,504 - 36,890,430 (-)NCBI
RGSC_v3.41925,018,352 - 25,111,367 (+)RGD
Celera1922,941,014 - 23,001,968 (+)RGD
Sequence:
RefSeq Acc Id: XM_039098011   ⟹   XP_038953939
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,287,275 - 40,356,966 (+)NCBI
mRatBN7.21923,382,424 - 23,450,360 (+)NCBI
RefSeq Acc Id: XM_039098013   ⟹   XP_038953941
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,287,659 - 40,356,966 (+)NCBI
mRatBN7.21923,382,826 - 23,448,346 (+)NCBI
RefSeq Acc Id: XM_039098017   ⟹   XP_038953945
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,287,659 - 40,356,966 (+)NCBI
mRatBN7.21923,382,826 - 23,448,346 (+)NCBI
RefSeq Acc Id: XM_063278301   ⟹   XP_063134371
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,287,240 - 40,356,966 (+)NCBI
RefSeq Acc Id: XM_063278302   ⟹   XP_063134372
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,260,031 - 40,356,966 (+)NCBI
RefSeq Acc Id: XM_063278303   ⟹   XP_063134373
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,285,789 - 40,356,966 (+)NCBI
RefSeq Acc Id: XM_063278304   ⟹   XP_063134374
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,259,873 - 40,356,966 (+)NCBI
RefSeq Acc Id: XM_063278305   ⟹   XP_063134375
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,284,635 - 40,356,966 (+)NCBI
RefSeq Acc Id: XM_063278306   ⟹   XP_063134376
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,287,888 - 40,356,966 (+)NCBI
RefSeq Acc Id: XM_063278307   ⟹   XP_063134377
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,280,149 - 40,356,966 (+)NCBI
RefSeq Acc Id: XM_063278308   ⟹   XP_063134378
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,280,459 - 40,356,966 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_110493   ⟸   NM_030866
- UniProtKB: F2Z3R4 (UniProtKB/TrEMBL),   A6IY74 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071775   ⟸   ENSRNOT00000091994
RefSeq Acc Id: ENSRNOP00000034591   ⟸   ENSRNOT00000039354
RefSeq Acc Id: XP_038953939   ⟸   XM_039098011
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953941   ⟸   XM_039098013
- Peptide Label: isoform X3
- UniProtKB: A6IY74 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038953945   ⟸   XM_039098017
- Peptide Label: isoform X7
- UniProtKB: A6IY74 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000082587   ⟸   ENSRNOT00000101795
RefSeq Acc Id: ENSRNOP00000096564   ⟸   ENSRNOT00000117437
RefSeq Acc Id: XP_063134374   ⟸   XM_063278304
- Peptide Label: isoform X6
RefSeq Acc Id: XP_063134372   ⟸   XM_063278302
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063134377   ⟸   XM_063278307
- Peptide Label: isoform X8
RefSeq Acc Id: XP_063134378   ⟸   XM_063278308
- Peptide Label: isoform X10
RefSeq Acc Id: XP_063134375   ⟸   XM_063278305
- Peptide Label: isoform X8
RefSeq Acc Id: XP_063134373   ⟸   XM_063278303
- Peptide Label: isoform X5
- UniProtKB: A0A0G2K1B6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134371   ⟸   XM_063278301
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063134376   ⟸   XM_063278306
- Peptide Label: isoform X9
Protein Domains
CTF/NF-I

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K1B6-F1-model_v2 AlphaFold A0A0G2K1B6 1-502 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:69080 AgrOrtholog
BioCyc Gene G2FUF-6119 BioCyc
Ensembl Genes ENSRNOG00000002983 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000039354 ENTREZGENE
  ENSRNOT00000039354.5 UniProtKB/TrEMBL
  ENSRNOT00000091994.2 UniProtKB/TrEMBL
  ENSRNOT00000101795.1 UniProtKB/TrEMBL
  ENSRNOT00000117437.1 UniProtKB/TrEMBL
InterPro CTF/NFI UniProtKB/TrEMBL
  CTF/NFI_DNA-bd-dom UniProtKB/TrEMBL
  CTF/NFI_DNA-bd_CS UniProtKB/TrEMBL
  CTF/NFI_DNA-bd_N UniProtKB/TrEMBL
  MAD_homology1_Dwarfin-type UniProtKB/TrEMBL
KEGG Report rno:81524 UniProtKB/TrEMBL
NCBI Gene 81524 ENTREZGENE
PANTHER CTF_NFI UniProtKB/TrEMBL
  NUCLEAR FACTOR 1 X-TYPE UniProtKB/TrEMBL
Pfam CTF_NFI UniProtKB/TrEMBL
  MH1 UniProtKB/TrEMBL
  NfI_DNAbd_pre-N UniProtKB/TrEMBL
PhenoGen Nfix PhenoGen
PROSITE CTF_NFI_1 UniProtKB/TrEMBL
  CTF_NFI_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000002983 RatGTEx
SMART DWA UniProtKB/TrEMBL
UniProt A0A0G2K1B6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AV91_RAT UniProtKB/TrEMBL
  A0A8I6G7L6_RAT UniProtKB/TrEMBL
  A6IY74 ENTREZGENE, UniProtKB/TrEMBL
  A6IY75_RAT UniProtKB/TrEMBL
  A6IY76_RAT UniProtKB/TrEMBL
  F2Z3R4 ENTREZGENE, UniProtKB/TrEMBL
  O70189_RAT UniProtKB/TrEMBL
  O70190_RAT UniProtKB/TrEMBL
  Q9QY86_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-08-08 Nfix  nuclear factor I X  Nf1x  nuclear factor 1 X  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-04-14 Nf1x  nuclear factor 1 X  Nfix  nuclear factor I/X (CCAAT-binding transcription factor)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-24 Nfix  nuclear factor I/X (CCAAT-binding transcription factor)  Nfix  nuclear factor I/X  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Nfix  nuclear factor I/X      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in the olfactory nasal mucosa 633408