Tbr1 MGI Mouse Gene Detail - MGI:107404 - T-box brain transcription factor 1

Symbol

Tbr1
Name

T-box brain transcription factor 1
Synonyms

T-box brain gene 1

Feature Type

protein coding gene
IDs

MGI:107404
NCBI Gene: 21375
Alliance

gene page
Transcription Start Sites

13 TSS

Sequence Map

Chr2:61633274-61644458 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 2, 35.56 cM
Mapping Data

2 experiments

SNPs within 2kb

199 from dbSNP Build 142
Strain Annotations

18
PCR

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_107404	protein coding gene	Chr2:61633228-61644458 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0025767	protein coding gene	Chr2:61479004-61490153 (+)
A/J	MGP_AJ_G0025743	protein coding gene	Chr2:59115139-59126318 (+)
AKR/J	MGP_AKRJ_G0025713	protein coding gene	Chr2:60715880-60727059 (+)
BALB/cJ	MGP_BALBcJ_G0025738	protein coding gene	Chr2:59225413-59236589 (+)
C3H/HeJ	MGP_C3HHeJ_G0025499	protein coding gene	Chr2:60814981-60826162 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0026185	protein coding gene	Chr2:63290835-63302019 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0023589	protein coding gene	Chr2:56618068-56629246 (+)
CAST/EiJ	MGP_CASTEiJ_G0024963	protein coding gene	Chr2:60893732-60904748 (+)
CBA/J	MGP_CBAJ_G0025479	protein coding gene	Chr2:65685990-65699428 (+)
DBA/2J	MGP_DBA2J_G0025610	protein coding gene	Chr2:58691577-58702747 (+)
FVB/NJ	MGP_FVBNJ_G0025572	protein coding gene	Chr2:58222753-58233907 (+)
LP/J	MGP_LPJ_G0025698	protein coding gene	Chr2:61306709-61317878 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0025603	protein coding gene	Chr2:67285280-67297624 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0026242	protein coding gene	Chr2:60756634-60767812 (+)
PWK/PhJ	MGP_PWKPhJ_G0024704	protein coding gene	Chr2:58572810-58583967 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0024511	protein coding gene	Chr2:60888548-60899714 (+)
WSB/EiJ	MGP_WSBEiJ_G0025031	protein coding gene	Chr2:61091187-61102350 (+)

Human Ortholog

TBR1, T-box brain transcription factor 1

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

TBR1, T-box brain transcription factor 1
Synonyms

AUTS5, IDDAS, TBR-1, TES-56
Links

HGNC:11590

NCBI Gene ID: 10716

neXtProt AC: NX_Q16650

UniProt: Q16650
Chr Location

2q24.2; chr2:161416297-161425870 (+) GRCh38

MGI Vertebrate Homology

Tbr1 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: TBR1
Gene Tree

Tbr1

Diseases

1 with Tbr1 mouse models

Human Disease

Mouse Models

autism spectrum disorder

IDs

View 2 models

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

Mutations/Alleles

2 with disease annotations

References

2 with disease annotations

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Phenotype Summary

41 phenotypes from 3 alleles in 4 genetic backgrounds
1 phenotype from multigenic genotypes
2 images
37 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

17
Chemically induced (other)

1
Endonuclease-mediated

6
Targeted

10
Genomic Mutations

1 involving Tbr1
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

38 strains or lines available
Comparison Matrix

Gene Expression + Phenotype
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

Mice homozygous for a targeted null allele fail to feed and die on the second postnatal day displaying disrupted forebrain morphology and a hypoplastic olfactory bulb that lacks normal mitral and tufted cells and shows a striking reduction in mature olfactory bulb projection neurons.

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All GO Annotations

33
GO References

14

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

1568
Tissues

295
cDNA Data

17
Literature Summary

785

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase tbr1

ZFIN tbr1a, tbr1b

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All Sequences

44
RefSeq

8
UniProt

3
CCDS

CCDS16063.1

Ensembl

ENSMUSG00000035033 (Evidence)
NCBI Gene

21375

			Length	Strain/Species	Flank
genomic	ENSMUSG00000035033	Ensembl Gene Model \| MGI Sequence Detail	11185	C57BL/6J	± kb
transcript	ENSMUST00000048934	Ensembl \| MGI Sequence Detail	3977	Not Applicable
polypeptide	ENSMUSP00000046787	Ensembl \| MGI Sequence Detail	681	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000016140 T-box brain protein 1

(term hierarchy)
InterPro Domains

IPR008967 p53-like transcription factor, DNA-binding domain superfamily

IPR036960 T-box superfamily

IPR001699 T-box transcription factor

IPR032385 T-box transcription factor-associated

IPR046360 T-box transcription factor, DNA-binding domain

IPR018186 Transcription factor, T-box, conserved site
GlyGen

Q64336 3 sites, 1 N-linked glycan (1 site), 1 O-linked glycan (2 sites)

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All nucleic 50

cDNA 20

Primer pair 12

Other 18

Microarray probesets 3

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MGD-MRK-35872

Summaries

All 840

Developmental Gene Expression 785

Diseases 2

Gene Ontology 14

Phenotypes 37
Earliest

J:27413 Bulfone A, et al., T-brain-1: a homolog of Brachyury whose expression defines molecularly distinct domains within the cerebral cortex. Neuron. 1995 Jul;15(1):63-78
Latest

J:354454 De Vincenti AP, et al., Lrig1 regulates cell fate specification of glutamatergic neurons via FGF-driven Jak2/Stat3 signaling in cortical progenitors. Development. 2024 Sep 1;151(17):dev202879

TSS for Tbr1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr17936	Chr2:61634845-61634882 (+)	1,590 bp
Tssr17937	Chr2:61634918-61634971 (+)	1,671 bp
Tssr17938	Chr2:61634982-61634989 (+)	1,712 bp
Tssr17939	Chr2:61635030-61635045 (+)	1,764 bp
Tssr17940	Chr2:61635101-61635110 (+)	1,832 bp
Tssr505	Chr2:61635121-61635131 (+)	1,852 bp
Tssr17941	Chr2:61635231-61635250 (+)	1,967 bp
Tssr17942	Chr2:61635320-61635340 (+)	2,056 bp
Tssr17943	Chr2:61635368-61635382 (+)	2,101 bp
Tssr17944	Chr2:61635384-61635397 (+)	2,117 bp
Tssr17945	Chr2:61642850-61642861 (+)	9,582 bp
Tssr17946	Chr2:61642900-61642919 (+)	9,636 bp
Tssr17947	Chr2:61643288-61643304 (+)	10,022 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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