Nfya MGI Mouse Gene Detail - MGI:97316 - nuclear transcription factor-Y alpha

Symbol

Nfya
Name

nuclear transcription factor-Y alpha
Synonyms

Cbf-b, Sez10

Feature Type

protein coding gene
IDs

MGI:97316
NCBI Gene: 18044
Alliance

genome feature page
Transcription Start Sites

10 TSS

Sequence Map

Chr17:48693917-48716782 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 17, 23.99 cM, cytoband C-D
Mapping Data

7 experiments

SNPs within 2kb

633 from dbSNP Build 142
Strain Annotations

19
RFLP

2

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_97316	protein coding gene	Chr17:48693913-48716934 (-)
129S1/SvImJ	ENSMUSG00200023794	protein coding gene	Chr17:43892777-43915877 (-)
A/J	ENSMUSG00195021234	protein coding gene	Chr17:45391995-45415079 (-)
AKR/J	ENSMUSG00220035887	protein coding gene	Chr17:44391995-44415082 (-)
BALB/cJ	ENSMUSG00180024399	protein coding gene	Chr17:45148335-45171418 (-)
C3H/HeJ	ENSMUSG00175015229	protein coding gene	Chr17:44455866-44478951 (-)
C57BL/6NJ	ENSMUSG00215019207	protein coding gene	Chr17:44018528-44041550 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0021725	protein coding gene	Chr17:45122411-45144833 (-)
CAST/EiJ	ENSTCUG00005022032	protein coding gene	Chr17:45189663-45212026 (-)
CBA/J	ENSMUSG00210034322	protein coding gene	Chr17:44205438-44228520 (-)
DBA/2J	ENSMUSG00185028249	protein coding gene	Chr17:47104459-47127543 (-)
FVB/NJ	ENSMUSG00205019360	protein coding gene	Chr17:44660773-44683802 (-)
JF1/MsJ	ENSUMUG00000032157	protein coding gene	Chr17:46785207-46807516 (-)
LP/J	ENSMUSG00230040598	protein coding gene	Chr17:48004297-48027396 (-)
NOD/ShiLtJ	ENSMUSG00190015723	protein coding gene	Chr17:44165001-44188030 (-)
NZO/HlLtJ	ENSMUSG00225042792	protein coding gene	Chr17:50256696-50279720 (-)
PWK/PhJ	ENSLUMG00010034322	protein coding gene	Chr17:44019736-44042284 (-)
SPRET/EiJ	ENSMSPG00010036141	protein coding gene	Chr17:44210056-44232489 (-)
WSB/EiJ	ENSIUOG00005026494	protein coding gene	Chr17:45053221-45076247 (-)

Human Ortholog

NFYA, nuclear transcription factor Y subunit alpha

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

NFYA, nuclear transcription factor Y subunit alpha
Synonyms

CBF-A, CBF-B, HAP2, NF-YA
Links

HGNC:7804

NCBI Gene ID: 4800

UniProt: P23511
Chr Location

6p21.1; chr6:41072946-41102403 (+) GRCh38

MGI Vertebrate Homology

Nfya stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: NFYA
Gene Tree

Nfya

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Phenotype Summary

4 phenotypes from 2 alleles in 1 genetic background
28 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

109
Endonuclease-mediated

7
Gene trapped

97
Targeted

5
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

83 strains or lines available

Inactivation of this locus impairs development and results in embryonic lethality.

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All GO Annotations

50
GO References

17

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

703
Tissues

95
cDNA Data

118
Literature Summary

16

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA NFYA

Xenbase nfya

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All Sequences

101
RefSeq

32
UniProt

11
CCDS

CCDS28867.1, CCDS50142.1, CCDS84320.1, CCDS84321.1, CCDS89116.1

Ensembl

ENSMUSG00000023994 (Evidence)
NCBI Gene

18044

			Length	Strain/Species	Flank
genomic	18044	NCBI Gene Model \| MGI Sequence Detail	22866	C57BL/6J	± kb
transcript	NM_001110832	RefSeq \| MGI Sequence Detail	3641	ZRU/MplStud
polypeptide	P23708	UniProt \| EBI \| MGI Sequence Detail	346	Not Applicable

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UniProt

11 Sequences
Protein Ontology

PR:000011188 nuclear transcription factor Y subunit alpha

(term hierarchy)
InterPro Domains

IPR018362 CCAAT-binding factor, conserved site

IPR001289 Nuclear transcription factor Y subunit A
GlyGen

P23708 1 site

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All nucleic 130

Genomic 4

cDNA 118

Primer pair 5

Other 3

Antibodies 2

Microarray probesets 5

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MGD-MRK-12835, MGI:2146744

Summaries

All 106

Developmental Gene Expression 16

Gene Ontology 17

Phenotypes 28
Earliest

J:10763 van Huijsduijnen RH, et al., Co-evolution from yeast to mouse: cDNA cloning of the two NF-Y (CP-1/CBF) subunits. EMBO J. 1990 Oct;9(10):3119-27
Latest

J:386756 Li Y, et al., Decoding the spatiotemporal development of human meninges. Cell. 2026 May 29;

TSS for Nfya:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr148537	Chr17:48716757-48716794 (-)	6 bp
Tssr148536	Chr17:48716616-48716627 (-)	160 bp
Tssr148535	Chr17:48716505-48716553 (-)	253 bp
Tssr148534	Chr17:48716038-48716055 (-)	735 bp
Tssr148533	Chr17:48716013-48716024 (-)	763 bp
Tssr148532	Chr17:48695624-48695637 (-)	21,151 bp
Tssr148531	Chr17:48695421-48695432 (-)	21,355 bp
Tssr148530	Chr17:48695176-48695190 (-)	21,599 bp
Tssr148529	Chr17:48695024-48695045 (-)	21,747 bp
Tssr148528	Chr17:48694994-48695020 (-)	21,775 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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