Nfix (nuclear factor I X) - Rat Genome Database

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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 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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81940,259,873 - 40,356,966 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1940,260,084 - 40,353,092 (+)EnsemblGRCr8
mRatBN7.21923,355,388 - 23,450,360 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1923,355,498 - 23,448,265 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1930,178,323 - 30,271,128 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01930,832,693 - 30,925,505 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01933,055,373 - 33,148,200 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01925,818,640 - 25,914,777 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1925,821,780 - 25,914,696 (-)Ensemblrn6Rnor6.0
Rnor_5.01936,794,504 - 36,890,430 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41925,018,352 - 25,111,367 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1922,941,014 - 23,001,968 (+)NCBICelera
RGSC_v3.11925,023,177 - 25,097,311 (+)NCBI
Cytogenetic Map19q11NCBI
JBrowse:




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-dibromophenyl 2,4,5-tribromophenyl ether  (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)
beta-lapachone  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bosentan  (ISO)
buta-1,3-diene  (ISO)
Butylbenzyl phthalate  (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 phosphate  (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)
glyphosate  (EXP)
GSK-J4  (ISO)
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)
naled  (ISO)
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)
thiram  (ISO)
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)
DNA-templated transcription  (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)
obsolete regulation of DNA-binding transcription factor activity  (ISO)
olfactory bulb development  (ISO)
oligodendrocyte differentiation  (ISO)
osteoclast differentiation  (ISO)
osteoclast proliferation  (ISO)
phagocytosis  (ISO)
positive regulation of DNA-templated transcription  (IEA)
positive regulation of transcription by RNA polymerase II  (ISO)
regeneration  (ISO)
regulation of DNA-templated transcription  (IEA)
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,IEA,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 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1940,260,084 - 40,353,092 (+)EnsemblGRCr8
mRatBN7.21923,355,388 - 23,450,360 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1923,355,498 - 23,448,265 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1930,178,323 - 30,271,128 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01930,832,693 - 30,925,505 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01933,055,373 - 33,148,200 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01925,818,640 - 25,914,777 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1925,821,780 - 25,914,696 (-)Ensemblrn6Rnor6.0
Rnor_5.01936,794,504 - 36,890,430 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41925,018,352 - 25,111,367 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1922,941,014 - 23,001,968 (+)NCBICelera
RGSC_v3.11925,023,177 - 25,097,311 (+)NCBI
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 (+)Ensemblhg38GRCh38
GRCh371913,106,289 - 13,209,610 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361912,967,584 - 13,070,610 (+)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm38884,704,712 - 84,801,238 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl884,699,876 - 84,800,344 (-)Ensemblmm10GRCm38
MGSCv37887,231,498 - 87,324,239 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (+)Ensembl
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 (+)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2048,989,635 - 49,094,158 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02049,634,123 - 49,738,501 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblSpeTri2.0 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 (-)EnsemblsusScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624901551,277 - 645,435 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Nfix
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11715,492,405 - 15,588,735 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Nfix
780 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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)19799775052997750Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)191922068964220689Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19799775052997750Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)19574806450748064Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)193236531174246245Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)192409397369093973Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
2303628Vencon9Ventilatory control QTL 90.005respiration trait (VT:0001943)minute ventilation (CMO:0000132)192318858668188586Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
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)193128753251431640Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19799775052997750Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19799775052997750Rat
1554318Bmd5Bone mineral density QTL 512.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)192318858668188586Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)192010930665109306Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)193009938347207961Rat

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

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

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

Ensembl Acc Id: ENSRNOT00000039354   ⟹   ENSRNOP00000034591
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1940,260,260 - 40,353,070 (+)Ensembl
mRatBN7.2 Ensembl1923,355,498 - 23,448,265 (+)Ensembl
Rnor_6.0 Ensembl1925,821,949 - 25,914,696 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000091994   ⟹   ENSRNOP00000071775
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1940,286,418 - 40,353,070 (+)Ensembl
mRatBN7.2 Ensembl1923,381,795 - 23,448,265 (+)Ensembl
Rnor_6.0 Ensembl1925,821,780 - 25,914,689 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000101795   ⟹   ENSRNOP00000082587
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1940,286,308 - 40,353,070 (+)Ensembl
mRatBN7.2 Ensembl1923,381,795 - 23,448,265 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000117437   ⟹   ENSRNOP00000096564
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1940,287,935 - 40,348,162 (+)Ensembl
mRatBN7.2 Ensembl1923,383,097 - 23,448,265 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000139238   ⟹   ENSRNOP00000100670
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1940,260,084 - 40,353,070 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000142728   ⟹   ENSRNOP00000100042
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1940,287,383 - 40,353,092 (+)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
RefSeq Acc Id: NP_110493   ⟸   NM_030866
- UniProtKB: F2Z3R4 (UniProtKB/TrEMBL),   A6IY74 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071775   ⟸   ENSRNOT00000091994
Ensembl 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)
Ensembl Acc Id: ENSRNOP00000082587   ⟸   ENSRNOT00000101795
Ensembl 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
- UniProtKB: A6IY74 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134377   ⟸   XM_063278307
- Peptide Label: isoform X8
- UniProtKB: A6IY74 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134378   ⟸   XM_063278308
- Peptide Label: isoform X10
RefSeq Acc Id: XP_063134375   ⟸   XM_063278305
- Peptide Label: isoform X8
- UniProtKB: A6IY74 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134373   ⟸   XM_063278303
- Peptide Label: isoform X5
- UniProtKB: A0A0G2K1B6 (UniProtKB/TrEMBL),   A6IY74 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134371   ⟸   XM_063278301
- Peptide Label: isoform X2
- UniProtKB: A6IY74 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134376   ⟸   XM_063278306
- Peptide Label: isoform X9
- UniProtKB: A6IY74 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000100670   ⟸   ENSRNOT00000139238
Ensembl Acc Id: ENSRNOP00000100042   ⟸   ENSRNOT00000142728
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
  ENSRNOT00000039354.6 UniProtKB/TrEMBL
  ENSRNOT00000091994 ENTREZGENE
  ENSRNOT00000091994.3 UniProtKB/TrEMBL
  ENSRNOT00000101795 ENTREZGENE
  ENSRNOT00000101795.2 UniProtKB/TrEMBL
  ENSRNOT00000117437.2 UniProtKB/TrEMBL
  ENSRNOT00000139238.1 UniProtKB/TrEMBL
  ENSRNOT00000142728 ENTREZGENE
  ENSRNOT00000142728.1 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
  A0ABK0L5U4_RAT UniProtKB/TrEMBL
  A0ABK0LCZ4_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