Timd4 MGI Mouse Gene Detail - MGI:2445125 - T cell immunoglobulin and mucin domain containing 4

Symbol

Timd4
Name

T cell immunoglobulin and mucin domain containing 4
Synonyms

B430010N18Rik, Tim4, TIM-4

Feature Type

protein coding gene
IDs

MGI:2445125
NCBI Gene: 276891
Alliance

gene page
Transcription Start Sites

7 TSS

Sequence Map

Chr11:46701627-46735159 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 11, 28.09 cM
Mapping Data

1 experiment

SNPs within 2kb

1019 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2445125	protein coding gene	Chr11:46701613-46735160 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0018201	protein coding gene	Chr11:45762231-45797934 (+)
A/J	MGP_AJ_G0018173	protein coding gene	Chr11:43973720-44008177 (+)
AKR/J	MGP_AKRJ_G0018139	protein coding gene	Chr11:45285191-45320690 (+)
BALB/cJ	MGP_BALBcJ_G0018142	protein coding gene	Chr11:44130135-44165356 (+)
C3H/HeJ	MGP_C3HHeJ_G0017956	protein coding gene	Chr11:45312856-45351129 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0018596	protein coding gene	Chr11:47123007-47161020 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0016251	protein coding gene	Chr11:41886438-41919081 (+)
CAST/EiJ	MGP_CASTEiJ_G0017519	protein coding gene	Chr11:45452507-45489915 (+)
CBA/J	MGP_CBAJ_G0017928	protein coding gene	Chr11:49309772-49350718 (+)
DBA/2J	MGP_DBA2J_G0018038	protein coding gene	Chr11:43755297-43789088 (+)
FVB/NJ	MGP_FVBNJ_G0018032	protein coding gene	Chr11:43408999-43443090 (+)
LP/J	MGP_LPJ_G0018110	protein coding gene	Chr11:46007238-46045333 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0018056	protein coding gene	Chr11:50833526-50870356 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0018635	protein coding gene	Chr11:45412400-45450107 (+)
PWK/PhJ	MGP_PWKPhJ_G0017299	protein coding gene	Chr11:43856501-43891596 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0017092	protein coding gene	Chr11:45239963-45276930 (+)
WSB/EiJ	MGP_WSBEiJ_G0017569	protein coding gene	Chr11:45108816-45141997 (+)

Human Ortholog

TIMD4, T cell immunoglobulin and mucin domain containing 4

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

TIMD4, T cell immunoglobulin and mucin domain containing 4
Synonyms

SMUCKLER, TIM4
Links

HGNC:25132

NCBI Gene ID: 91937

neXtProt AC: NX_Q96H15

UniProt: Q96H15
Chr Location

5q33.3; chr5:156919292-156963226 (-) GRCh38

MGI Vertebrate Homology

Timd4 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: TIMD4
Gene Tree

Timd4

Diseases

1 with Timd4 mouse models

Human Disease

Mouse Models

systemic lupus erythematosus

IDs

View 1 model

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

Mutations/Alleles

1 with disease annotations

References

1 with disease annotations

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Phenotype Summary

22 phenotypes from 3 alleles in 3 genetic backgrounds
3 phenotypes from multigenic genotypes
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

11
Chemically induced (other)

1
Endonuclease-mediated

6
Targeted

4
Genomic Mutations

1 involving Timd4
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

29 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a knock-out allele exhibit impaired macrophage phagocytosis, altered macrophage physiology, and increased peritoneal lymphoid and meyloid cell numbers.

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All GO Annotations

8
GO References

5

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

715
Tissues

9
cDNA Data

12
Literature Summary

2

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

ZFIN timd4

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All Sequences

37
RefSeq

6
UniProt

1
CCDS

CCDS36137.1

Ensembl

ENSMUSG00000055546 (Evidence)
NCBI Gene

276891

			Length	Strain/Species	Flank
genomic	ENSMUSG00000055546	Ensembl Gene Model \| MGI Sequence Detail	33533	C57BL/6J	± kb
transcript	ENSMUST00000068877	Ensembl \| MGI Sequence Detail	2173	Not Applicable
polypeptide	ENSMUSP00000069456	Ensembl \| MGI Sequence Detail	343	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000016339 T-cell immunoglobulin and mucin domain-containing protein 4

(term hierarchy)
PDB

3BI9, 3BIA, 3BIB
InterPro Domains

IPR007110 Immunoglobulin-like domain

IPR036179 Immunoglobulin-like domain superfamily

IPR013783 Immunoglobulin-like fold

IPR003599 Immunoglobulin subtype

IPR013106 Immunoglobulin V-set domain
GlyGen

Q6U7R4 1 site

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All nucleic 13

cDNA 12

Primer pair 1

Microarray probesets 3

Summaries

All 74

Developmental Gene Expression 2

Diseases 1

Gene Ontology 5

Phenotypes 37
Earliest

J:13080 DICKIES MM, A new viable yellow mutation in the house mouse. J Hered. 1962 Mar-Apr;53:84-6
Latest

J:348926 Hori A, et al., MHC class I-dressing is mediated via phosphatidylserine recognition and is enhanced by polyI:C. iScience. 2024 May 17;27(5):109704

TSS for Timd4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr101128	Chr11:46701619-46701636 (+)	1 bp
Tssr101129	Chr11:46706358-46706369 (+)	4,737 bp
Tssr101130	Chr11:46706511-46706536 (+)	4,897 bp
Tssr101131	Chr11:46706544-46706565 (+)	4,928 bp
Tssr101132	Chr11:46708364-46708391 (+)	6,751 bp
Tssr101133	Chr11:46708399-46708417 (+)	6,781 bp
Tssr101134	Chr11:46712288-46712293 (+)	10,664 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)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 11/12/2024 MGI 6.24