Ubtf MGI Mouse Gene Detail - MGI:98512 - upstream binding transcription factor, RNA polymerase I

Symbol

Ubtf
Name

upstream binding transcription factor, RNA polymerase I
Synonyms

A930005G04Rik, Tcfubf, UBF, UBF1

Feature Type

protein coding gene
IDs

MGI:98512
NCBI Gene: 21429
Alliance

gene page
Transcription Start Sites

14 TSS

Sequence Map

Chr11:102195386-102210568 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 11, 66.29 cM, cytoband D
Mapping Data

2 experiments

SNPs within 2kb

351 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_98512	protein coding gene	Chr11:102195386-102214738 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0019231	protein coding gene	Chr11:105265838-105283342 (-)
A/J	MGP_AJ_G0019199	protein coding gene	Chr11:100818464-100839869 (-)
AKR/J	MGP_AKRJ_G0019168	protein coding gene	Chr11:103943925-103960718 (-)
BALB/cJ	MGP_BALBcJ_G0019173	protein coding gene	Chr11:101309750-101325185 (-)
C3H/HeJ	MGP_C3HHeJ_G0018982	protein coding gene	Chr11:104150608-104168542 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0019622	protein coding gene	Chr11:108548559-108566052 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0017248	protein coding gene	Chr11:98252852-98267913 (-)
CAST/EiJ	MGP_CASTEiJ_G0018536	protein coding gene	Chr11:105128278-105145883 (-)
CBA/J	MGP_CBAJ_G0018951	protein coding gene	Chr11:113028359-113050769 (-)
DBA/2J	MGP_DBA2J_G0019063	protein coding gene	Chr11:100344505-100360070 (-)
FVB/NJ	MGP_FVBNJ_G0019053	protein coding gene	Chr11:99875406-99891061 (-)
LP/J	MGP_LPJ_G0019132	protein coding gene	Chr11:105785623-105805720 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0019084	protein coding gene	Chr11:112530740-112548211 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0019660	protein coding gene	Chr11:104304577-104321694 (-)
PWK/PhJ	MGP_PWKPhJ_G0018299	protein coding gene	Chr11:101409328-101425447 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0018091	protein coding gene	Chr11:104064788-104081016 (-)
WSB/EiJ	MGP_WSBEiJ_G0018585	protein coding gene	Chr11:104306125-104321389 (-)

Human Ortholog

UBTF, upstream binding transcription factor

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

UBTF, upstream binding transcription factor
Synonyms

CONDBA, NOR-90, UBF, UBF-1, UBF1, UBF2
Links

HGNC:12511

NCBI Gene ID: 7343

neXtProt AC: NX_P17480

UniProt: P17480
Chr Location

17q21.31; chr17:44205033-44221626 (-) GRCh38

MGI Vertebrate Homology

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

vertebrate homology predictions: UBTF
Gene Tree

Ubtf

Diseases

1 with human UBTF associations

				Human Disease	Mouse Models
				childhood-onset neurodegeneration with brain atrophy IDs childhood-onset neurodegeneration with brain atrophy DOID:0070474 OMIM:617672 ORDO:500180 UMLS_CUI:C4540086 UMLS_CUI:C5567227

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

29 phenotypes from 4 alleles in 4 genetic backgrounds
23 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

76
Endonuclease-mediated

3
Gene trapped

65
Targeted

8
Genomic Mutations

1 involving Ubtf
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

55 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a knock-out allele exhibit embryonic lethality before implantation with embryonic growth arrest.

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All GO Annotations

28
GO References

18

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

827
Tissues

77
cDNA Data

150
Literature Summary

14

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase ubtf

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All Sequences

122
RefSeq

48
UniProt

8
CCDS

CCDS25495.1, CCDS36343.1, CCDS79056.1, CCDS88262.1

Ensembl

ENSMUSG00000020923 (Evidence)
NCBI Gene

21429

			Length	Strain/Species	Flank
genomic	ENSMUSG00000020923	Ensembl Gene Model \| MGI Sequence Detail	15183	C57BL/6J	± kb
transcript	ENSMUST00000174302	Ensembl \| MGI Sequence Detail	4692	Not Applicable
polypeptide	ENSMUSP00000133844	Ensembl \| MGI Sequence Detail	764	Not Applicable

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UniProt

8 Sequences
Protein Ontology

PR:000017017 nucleolar transcription factor 1

(term hierarchy)
PDB

1V63, 1V64, 1WGF
InterPro Domains

IPR009071 High mobility group box domain

IPR029215 High mobility group box domain 5

IPR036910 High mobility group box domain superfamily

IPR051762 Upstream Binding Factor 1
GlyGen

P25976 2 sites, 1 N-linked glycan (1 site), 1 O-linked glycan (1 site)

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All nucleic 156

Genomic 4

cDNA 150

Primer pair 2

Microarray probesets 5

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MGD-MRK-14765, MGI:1925846

Summaries

All 82

Developmental Gene Expression 14

Gene Ontology 18

Phenotypes 23
Earliest

J:11433 Hisatake K, et al., Cloning and structural analysis of cDNA and the gene for mouse transcription factor UBF. Nucleic Acids Res. 1991 Sep 11;19(17):4631-7
Latest

J:348701 Nakagawa S, et al., The Wnt-dependent master regulator NKX1-2 controls mouse pre-implantation development. Stem Cell Reports. 2024 May 14;19(5):689-709

TSS for Ubtf:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr111036	Chr11:102210651-102210685 (-)	-100 bp
Tssr111035	Chr11:102210208-102210272 (-)	328 bp
Tssr111034	Chr11:102210168-102210175 (-)	396 bp
Tssr111033	Chr11:102209919-102209931 (-)	643 bp
Tssr111032	Chr11:102209767-102209830 (-)	769 bp
Tssr111031	Chr11:102208862-102208887 (-)	1,693 bp
Tssr111030	Chr11:102208686-102208703 (-)	1,873 bp
Tssr111029	Chr11:102208613-102208642 (-)	1,940 bp
Tssr111028	Chr11:102208586-102208611 (-)	1,969 bp
Tssr111027	Chr11:102208449-102208468 (-)	2,109 bp
Tssr111026	Chr11:102207517-102207534 (-)	3,042 bp
Tssr111025	Chr11:102207486-102207504 (-)	3,073 bp
Tssr111024	Chr11:102207433-102207472 (-)	3,115 bp
Tssr111023	Chr11:102196873-102196896 (-)	13,683 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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